diff --git a/source/hactool_application_list.hpp b/source/hactool_application_list.hpp
new file mode 100644
index 0000000..2bb38e0
--- /dev/null
+++ b/source/hactool_application_list.hpp
@@ -0,0 +1,114 @@
+/*
+ * Copyright (c) Atmosphère-NX
+ *
+ * This program is free software; you can redistribute it and/or modify it
+ * under the terms and conditions of the GNU General Public License,
+ * version 2, as published by the Free Software Foundation.
+ *
+ * This program is distributed in the hope it will be useful, but WITHOUT
+ * ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or
+ * FITNESS FOR A PARTICULAR PURPOSE.  See the GNU General Public License for
+ * more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program.  If not, see <http://www.gnu.org/licenses/>.
+ */
+#pragma once
+#include <stratosphere.hpp>
+
+namespace ams::hactool {
+
+    template<typename UserData>
+    class ApplicationContentTreeEntry : public util::IntrusiveRedBlackTreeBaseNode<ApplicationContentTreeEntry<UserData>> {
+        private:
+            ncm::ApplicationId m_id;
+            u32 m_version;
+            u8 m_id_offset;
+            ncm::ContentType m_type;
+            UserData m_data;
+        public:
+            ApplicationContentTreeEntry(ncm::ApplicationId id, u32 v, u8 o, ncm::ContentType t) : m_id(id), m_version(v), m_id_offset(o), m_type(t), m_data() {
+                /* ... */
+            }
+
+            ncm::ApplicationId GetId() const {
+                return m_id;
+            }
+
+            u32 GetVersion() const {
+                return m_version;
+            }
+
+            u8 GetIdOffset() const {
+                return m_id_offset;
+            }
+
+            ncm::ContentType GetType() const {
+                return m_type;
+            }
+
+            const UserData &GetData() const { return m_data; }
+
+            UserData &GetData() { return m_data; }
+    };
+
+    template<typename T>
+    struct ApplicationContentTreeEntryCompare {
+        static ALWAYS_INLINE int Compare(const ApplicationContentTreeEntry<T> &a, const ApplicationContentTreeEntry<T> &b) {
+            const auto a_i = a.GetId();
+            const auto a_v = a.GetVersion();
+            const auto a_o = a.GetIdOffset();
+            const auto a_t = a.GetType();
+            const auto b_i = b.GetId();
+            const auto b_v = b.GetVersion();
+            const auto b_o = b.GetIdOffset();
+            const auto b_t = b.GetType();
+            if (std::tie(a_i, a_v, a_o, a_t) < std::tie(b_i, b_v, b_o, b_t)) {
+                return -1;
+            } else if (std::tie(a_i, a_v, a_o, a_t) > std::tie(b_i, b_v, b_o, b_t)) {
+                return 1;
+            } else {
+                return 0;
+            }
+        }
+    };
+
+    template<typename T>
+    using ApplicationContentTree = typename util::IntrusiveRedBlackTreeBaseTraits<ApplicationContentTreeEntry<T>>::TreeType<ApplicationContentTreeEntryCompare<T>>;
+
+    template<typename T>
+    struct ApplicationContentsHolder {
+        NON_COPYABLE(ApplicationContentsHolder);
+        NON_MOVEABLE(ApplicationContentsHolder);
+        private:
+            ApplicationContentTree<T> m_tree;
+        public:
+            ApplicationContentsHolder() : m_tree() { /* ... */ }
+
+            ~ApplicationContentsHolder() {
+                while (!m_tree.empty()) {
+                    auto it = m_tree.begin();
+                    while (it != m_tree.end()) {
+                        auto *entry = std::addressof(*it);
+                        it = m_tree.erase(it);
+                        delete entry;
+                    }
+                }
+            }
+
+            ApplicationContentTreeEntry<T> *Insert(ncm::ApplicationId id, u32 v, u8 o, ncm::ContentType t) {
+                auto *entry = new ApplicationContentTreeEntry<T>(id, v, o, t);
+                m_tree.insert(*entry);
+                return entry;
+            }
+
+            auto begin() const { return m_tree.begin(); }
+            auto end() const { return m_tree.end(); }
+
+            auto Find(ncm::ApplicationId id, u32 v, u8 o, ncm::ContentType t) {
+                ApplicationContentTreeEntry<T> dummy(id, v, o, t);
+                return m_tree.find(dummy);
+            }
+    };
+
+}
\ No newline at end of file
diff --git a/source/hactool_fs_utils.cpp b/source/hactool_fs_utils.cpp
index f212d4c..a66b706 100644
--- a/source/hactool_fs_utils.cpp
+++ b/source/hactool_fs_utils.cpp
@@ -63,6 +63,14 @@ namespace ams::hactool {
 
     }
 
+    bool PathView::HasPrefix(util::string_view prefix) const {
+        return m_path.compare(0, prefix.length(), prefix) == 0;
+    }
+
+    bool PathView::HasSuffix(util::string_view suffix) const {
+        return m_path.compare(m_path.length() - suffix.length(), suffix.length(), suffix) == 0;
+    }
+
     Result OpenFileStorage(std::shared_ptr<fs::IStorage> *out, std::shared_ptr<fs::fsa::IFileSystem> &fs, const char *path) {
         /* Open the file storage. */
         std::shared_ptr<ams::fs::FileStorageBasedFileSystem> file_storage = fssystem::AllocateShared<ams::fs::FileStorageBasedFileSystem>();
@@ -81,6 +89,30 @@ namespace ams::hactool {
         R_SUCCEED();
     }
 
+    Result OpenSubDirectoryFileSystem(std::shared_ptr<fs::fsa::IFileSystem> *out, std::shared_ptr<fs::fsa::IFileSystem> &fs, const char *path) {
+        /* Get the fs path. */
+        ams::fs::Path fs_path;
+        R_UNLESS(path != nullptr, fs::ResultNullptrArgument());
+        R_TRY(fs_path.SetShallowBuffer(path));
+
+        /* Verify that we can open the directory on the base filesystem. */
+        {
+            std::unique_ptr<fs::fsa::IDirectory> sub_dir;
+            R_TRY(fs->OpenDirectory(std::addressof(sub_dir), fs_path, fs::OpenDirectoryMode_Directory));
+        }
+
+        /* Allocate the subdirectory filesystem. */
+        auto subdir_fs = fssystem::AllocateShared<fssystem::SubDirectoryFileSystem>(fs);
+        R_UNLESS(subdir_fs != nullptr, fs::ResultAllocationMemoryFailedAllocateShared());
+
+        /* Initialize the subdirectory filesystem. */
+        R_TRY(subdir_fs->Initialize(fs_path));
+
+        /* Set the output. */
+        *out = std::move(subdir_fs);
+        R_SUCCEED();
+    }
+
     Result PrintDirectory(std::shared_ptr<fs::fsa::IFileSystem> &fs, const char *prefix, const char *path) {
         /* Get the fs path. */
         ams::fs::Path fs_path;
diff --git a/source/hactool_fs_utils.hpp b/source/hactool_fs_utils.hpp
index 2eeeb54..0b5af76 100644
--- a/source/hactool_fs_utils.hpp
+++ b/source/hactool_fs_utils.hpp
@@ -18,8 +18,19 @@
 
 namespace ams::hactool {
 
+   class PathView {
+        private:
+            util::string_view m_path;
+        public:
+            PathView(util::string_view p) : m_path(p) { /* ...*/ }
+            bool HasPrefix(util::string_view prefix) const;
+            bool HasSuffix(util::string_view suffix) const;
+    };
+
     Result OpenFileStorage(std::shared_ptr<fs::IStorage> *out, std::shared_ptr<fs::fsa::IFileSystem> &fs, const char *path);
 
+    Result OpenSubDirectoryFileSystem(std::shared_ptr<fs::fsa::IFileSystem> *out, std::shared_ptr<fs::fsa::IFileSystem> &fs, const char *path);
+
     Result PrintDirectory(std::shared_ptr<fs::fsa::IFileSystem> &fs, const char *prefix, const char *path);
 
     Result ExtractDirectory(std::shared_ptr<fs::fsa::IFileSystem> &dst_fs, std::shared_ptr<fs::fsa::IFileSystem> &src_fs, const char *prefix, const char *dst_path, const char *src_path);
diff --git a/source/hactool_options.cpp b/source/hactool_options.cpp
index 1eb246b..c830207 100644
--- a/source/hactool_options.cpp
+++ b/source/hactool_options.cpp
@@ -110,6 +110,8 @@ namespace ams::hactool {
                     options.file_type = FileType::Nca;
                 } else if (std::strcmp(arg, "xci") == 0) {
                     options.file_type = FileType::Xci;
+                } else if (std::strcmp(arg, "appfs") == 0) {
+                    options.file_type = FileType::AppFs;
                 } else {
                     return false;
                 }
diff --git a/source/hactool_options.hpp b/source/hactool_options.hpp
index 590c199..f257bc4 100644
--- a/source/hactool_options.hpp
+++ b/source/hactool_options.hpp
@@ -30,6 +30,7 @@ namespace ams::hactool {
         Kip,
         Ini,
         Npdm,
+        AppFs,
     };
 
     struct Options {
@@ -41,6 +42,9 @@ namespace ams::hactool {
         bool dev = false;
         bool enable_hash = false;
         bool disable_key_warns = false;
+        int preferred_app_index = -1;
+        int preferred_program_index = -1;
+        int preferred_version = -1;
         const char *key_file_path = nullptr;
         const char *titlekey_path = nullptr;
         const char *consolekey_path = nullptr;
diff --git a/source/hactool_processor.app_fs.cpp b/source/hactool_processor.app_fs.cpp
new file mode 100644
index 0000000..f2807a0
--- /dev/null
+++ b/source/hactool_processor.app_fs.cpp
@@ -0,0 +1,234 @@
+/*
+ * Copyright (c) Atmosphère-NX
+ *
+ * This program is free software; you can redistribute it and/or modify it
+ * under the terms and conditions of the GNU General Public License,
+ * version 2, as published by the Free Software Foundation.
+ *
+ * This program is distributed in the hope it will be useful, but WITHOUT
+ * ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or
+ * FITNESS FOR A PARTICULAR PURPOSE.  See the GNU General Public License for
+ * more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program.  If not, see <http://www.gnu.org/licenses/>.
+ */
+#include <stratosphere.hpp>
+#include "hactool_processor.hpp"
+#include "hactool_fs_utils.hpp"
+
+namespace ams::hactool {
+
+    namespace {
+
+        constexpr const s32 MetaFileSystemPartitionIndex = 0;
+
+        constexpr const char MetaNcaFileNameExtension[] = ".cnmt.nca";
+        constexpr const char NcaFileNameExtension[] = ".nca";
+
+        constexpr const char ContentMetaFileNameExtension[] = ".cnmt";
+
+        Result ReadContentMetaFile(std::unique_ptr<u8[]> *out, size_t *out_size, std::shared_ptr<fs::fsa::IFileSystem> &fs) {
+            bool found = false;
+            R_RETURN(fssystem::IterateDirectoryRecursively(fs.get(),
+                [&] (const fs::Path &, const fs::DirectoryEntry &) -> Result { R_SUCCEED(); },
+                [&] (const fs::Path &, const fs::DirectoryEntry &) -> Result { R_SUCCEED(); },
+                [&] (const fs::Path &path, const fs::DirectoryEntry &entry) -> Result {
+                    /* If we already found the content meta, finish. */
+                    R_SUCCEED_IF(found);
+
+                    /* If the path isn't a meta nca, finish. */
+                    R_SUCCEED_IF(!PathView(entry.name).HasSuffix(ContentMetaFileNameExtension));
+
+                    /* Open the file storage. */
+                    std::shared_ptr<fs::IStorage> storage;
+                    R_TRY(OpenFileStorage(std::addressof(storage), fs, path.GetString()));
+
+                    /* Get the meta file size. */
+                    s64 size;
+                    R_TRY(storage->GetSize(std::addressof(size)));
+
+                    /* Allocate buffer. */
+                    auto data = std::make_unique<u8[]>(static_cast<size_t>(size));
+                    R_UNLESS(data != nullptr, fs::ResultAllocationMemoryFailedMakeUnique());
+
+                    /* Read the meta into the buffer. */
+                    R_TRY(storage->Read(0, data.get(), size));
+
+                    /* Return the output buffer. */
+                    *out      = std::move(data);
+                    *out_size = static_cast<size_t>(size);
+                    found = true;
+
+                    R_SUCCEED();
+                }
+            ));
+
+            R_THROW(ncm::ResultContentMetaNotFound());
+        }
+
+    }
+
+    Result Processor::ProcessAsApplicationFileSystem(std::shared_ptr<fs::fsa::IFileSystem> fs, ProcessAsApplicationFileSystemCtx *ctx) {
+        /* Ensure we have a context. */
+        ProcessAsApplicationFileSystemCtx local_ctx{};
+        if (ctx == nullptr) {
+            ctx = std::addressof(local_ctx);
+        }
+
+        /* Set the fs. */
+        ctx->fs = std::move(fs);
+
+        /* Iterate all files in the filesystem. */
+        {
+            /* Iterate, printing the contents of the directory. */
+            const auto iter_result = fssystem::IterateDirectoryRecursively(ctx->fs.get(),
+                [&] (const fs::Path &, const fs::DirectoryEntry &) -> Result { R_SUCCEED(); },
+                [&] (const fs::Path &, const fs::DirectoryEntry &) -> Result { R_SUCCEED(); },
+                [&] (const fs::Path &path, const fs::DirectoryEntry &entry) -> Result {
+                    /* If the path isn't a meta nca, finish. */
+                    R_SUCCEED_IF(!PathView(entry.name).HasSuffix(MetaNcaFileNameExtension));
+
+                    /* Try opening the meta. */
+                    std::shared_ptr<fs::IStorage> meta_nca_storage;
+                    if (const auto res = OpenFileStorage(std::addressof(meta_nca_storage), ctx->fs, path.GetString()); R_FAILED(res)) {
+                        fprintf(stderr, "[Warning]: Failed to open meta nca (%s): 2%03d-%04d\n", path.GetString(), res.GetModule(), res.GetDescription());
+                        R_SUCCEED();
+                    }
+
+                    ProcessAsNcaContext meta_nca_ctx = {};
+                    if (const auto res = this->ProcessAsNca(std::move(meta_nca_storage), std::addressof(meta_nca_ctx)); R_FAILED(res)) {
+                        fprintf(stderr, "[Warning]: Failed to process meta nca (%s): 2%03d-%04d\n", path.GetString(), res.GetModule(), res.GetDescription());
+                        R_SUCCEED();
+                    }
+
+                    /* We only care about meta ncas. */
+                    if (meta_nca_ctx.reader->GetContentType() != fssystem::NcaHeader::ContentType::Meta) {
+                        fprintf(stderr, "[Warning]: Expected %s to be Meta, was %s\n", path.GetString(), fs::impl::IdString().ToString(meta_nca_ctx.reader->GetContentType()));
+                        R_SUCCEED();
+                    }
+
+                    /* Clarification: we only care about meta ncas which are mountable. */
+                    if (!meta_nca_ctx.is_mounted[MetaFileSystemPartitionIndex]) {
+                        fprintf(stderr, "[Warning]: Expected to mount meta nca partition for %s, but didn't.\n", path.GetString());
+                        R_SUCCEED();
+                    }
+
+                    /* Read the content meta file. */
+                    std::unique_ptr<u8[]> meta_data;
+                    size_t meta_size;
+                    if (const auto res = ReadContentMetaFile(std::addressof(meta_data), std::addressof(meta_size), meta_nca_ctx.file_systems[MetaFileSystemPartitionIndex]); R_FAILED(res)) {
+                        fprintf(stderr, "[Warning]: Failed to read cnmt from %s: 2%03d-%04d\n", path.GetString(), res.GetModule(), res.GetDescription());
+                        R_SUCCEED();
+                    }
+
+                    /* Parse the cnmt. */
+                    const auto meta_reader = ncm::PackagedContentMetaReader(meta_data.get(), meta_size);
+                    const auto * const meta_header = meta_reader.GetHeader();
+
+                    /* We only care about applications/patches. */
+                    R_SUCCEED_IF(meta_header->type != ncm::ContentMetaType::Application && meta_header->type != ncm::ContentMetaType::Patch);
+
+                    /* Get the key. */
+                    const auto app_id = meta_reader.GetApplicationId();
+                    AMS_ABORT_UNLESS(app_id.has_value());
+
+                    /* Get the version. */
+                    const auto version = meta_header->version;
+
+                    /* Add all the content metas. */
+                    for (size_t i = 0; i < meta_reader.GetContentCount(); ++i) {
+                        const auto &info = *meta_reader.GetContentInfo(i);
+
+                        /* Check that the type isn't a delta. */
+                        if (info.GetType() == ncm::ContentType::DeltaFragment) {
+                            continue;
+                        }
+
+                        /* Check that we don't already have an info for the content. */
+                        if (auto existing = ctx->apps.Find(*app_id, version, info.GetIdOffset(), info.GetType()); existing != ctx->apps.end()) {
+                            fprintf(stderr, "[Warning]: Ignoring duplicate entry { %016" PRIX64 ", %" PRIu32 ", %d, %d }\n", app_id->value, version, static_cast<int>(info.GetIdOffset()), static_cast<int>(info.GetType()));
+                            continue;
+                        }
+
+                        /* Try to open the storage for the specified file. */
+                        std::shared_ptr<fs::IStorage> storage;
+                        {
+                            const auto cid_str = ncm::GetContentIdString(info.GetId());
+                            char file_name[ncm::ContentIdStringLength + 0x10];
+                            util::TSNPrintf(file_name, sizeof(file_name), "%s%s", cid_str.data, NcaFileNameExtension);
+
+                            const auto res = [&] () -> Result {
+                                ams::fs::Path fs_path;
+                                R_TRY(fs_path.Initialize(path));
+                                R_TRY(fs_path.RemoveChild());
+                                R_TRY(fs_path.AppendChild(file_name));
+
+                                R_RETURN(OpenFileStorage(std::addressof(storage), ctx->fs, fs_path.GetString()));
+                            }();
+                            if (R_FAILED(res)) {
+                                fprintf(stderr, "[Warning]: Failed to open NCA (type %d) specified by %s: 2%03d-%04d\n", static_cast<int>(info.GetType()), path.GetString(), res.GetModule(), res.GetDescription());
+                                R_SUCCEED();
+                            }
+                        }
+
+                        /* Add the new version for the content. */
+                        auto *entry = ctx->apps.Insert(*app_id, version, info.GetIdOffset(), info.GetType());
+                        entry->GetData().storage = std::move(storage);
+                    }
+
+                    R_SUCCEED();
+                }
+            );
+            if (R_FAILED(iter_result)) {
+                fprintf(stderr, "[Warning]: Failed to parse application filesystem: 2%03d-%04d\n", iter_result.GetModule(), iter_result.GetDescription());
+            }
+        }
+
+        /* TODO: Recursive processing? */
+
+        /* Print. */
+        if (ctx == std::addressof(local_ctx)) {
+            this->PrintAsApplicationFileSystem(*ctx);
+        }
+
+        /* Save. */
+        if (ctx == std::addressof(local_ctx)) {
+            this->SaveAsApplicationFileSystem(*ctx);
+        }
+
+        R_SUCCEED();
+    }
+
+    void Processor::PrintAsApplicationFileSystem(ProcessAsApplicationFileSystemCtx &ctx) {
+        auto _ = this->PrintHeader("Application File System");
+
+        {
+            s32 app_idx = -1;
+            ncm::ApplicationId cur_app_id{};
+            const char *field_name = "Programs";
+            for (const auto &entry : ctx.apps) {
+                if (entry.GetType() != ncm::ContentType::Program) {
+                    continue;
+                }
+
+                if (app_idx == -1 || cur_app_id != entry.GetId()) {
+                    ++app_idx;
+                    cur_app_id = entry.GetId();
+                }
+
+                this->PrintFormat(field_name, "{ Idx=%d, ProgramId=%016" PRIX64 ", Version=0x%08" PRIX32 ", IdOffset=%02" PRIX32 " }", app_idx, entry.GetId().value, entry.GetVersion(), entry.GetIdOffset());
+                field_name = "";
+            }
+        }
+
+        /* TODO */
+        AMS_UNUSED(ctx);
+    }
+
+    void Processor::SaveAsApplicationFileSystem(ProcessAsApplicationFileSystemCtx &ctx) {
+        /* TODO */
+        AMS_UNUSED(ctx);
+    }
+
+}
\ No newline at end of file
diff --git a/source/hactool_processor.hpp b/source/hactool_processor.hpp
index ae10213..79ea988 100644
--- a/source/hactool_processor.hpp
+++ b/source/hactool_processor.hpp
@@ -16,6 +16,7 @@
 #pragma once
 #include <stratosphere.hpp>
 #include "hactool_options.hpp"
+#include "hactool_application_list.hpp"
 
 namespace ams::hactool {
 
@@ -74,6 +75,16 @@ namespace ams::hactool {
                 ProcessAsNpdmContext npdm_ctx;
             };
 
+            struct ProcessAsApplicationFileSystemCtx {
+                std::shared_ptr<fs::fsa::IFileSystem> fs;
+
+                struct ApplicationEntryData {
+                    std::shared_ptr<fs::IStorage> storage;
+                };
+
+                ApplicationContentsHolder<ApplicationEntryData> apps;
+            };
+
             struct ProcessAsXciContext {
                 std::shared_ptr<fs::IStorage> storage;
 
@@ -102,6 +113,8 @@ namespace ams::hactool {
                 PartitionData logo_partition;
                 PartitionData normal_partition;
                 PartitionData secure_partition;
+
+                ProcessAsApplicationFileSystemCtx app_ctx;
             };
         private:
             Options m_options;
@@ -193,16 +206,19 @@ namespace ams::hactool {
             Result ProcessAsNca(std::shared_ptr<fs::IStorage> storage, ProcessAsNcaContext *ctx = nullptr);
             Result ProcessAsNpdm(std::shared_ptr<fs::IStorage> storage, ProcessAsNpdmContext *ctx = nullptr);
             Result ProcessAsXci(std::shared_ptr<fs::IStorage> storage, ProcessAsXciContext *ctx = nullptr);
+            Result ProcessAsApplicationFileSystem(std::shared_ptr<fs::fsa::IFileSystem> fs, ProcessAsApplicationFileSystemCtx *ctx = nullptr);
 
             /* Printing. */
             void PrintAsNca(ProcessAsNcaContext &ctx);
             void PrintAsNpdm(ProcessAsNpdmContext &ctx);
             void PrintAsXci(ProcessAsXciContext &ctx);
+            void PrintAsApplicationFileSystem(ProcessAsApplicationFileSystemCtx &ctx);
 
             /* Saving. */
             void SaveAsNca(ProcessAsNcaContext &ctx);
             void SaveAsNpdm(ProcessAsNpdmContext &ctx);
             void SaveAsXci(ProcessAsXciContext &ctx);
+            void SaveAsApplicationFileSystem(ProcessAsApplicationFileSystemCtx &ctx);
     };
 
     inline void Processor::PrintLineImpl(const char *fmt, ...) const {
diff --git a/source/hactool_processor.main.cpp b/source/hactool_processor.main.cpp
index a6afb7d..16fcb46 100644
--- a/source/hactool_processor.main.cpp
+++ b/source/hactool_processor.main.cpp
@@ -33,24 +33,34 @@ namespace ams::hactool {
         /* Setup our internal keys. */
         this->PresetInternalKeys();
 
-        /* Open the file storage. */
-        std::shared_ptr<fs::IStorage> input = nullptr;
-        if (m_options.in_file_path != nullptr) {
-            R_TRY(OpenFileStorage(std::addressof(input), m_local_fs, m_options.in_file_path));
-        }
+        if (m_options.file_type == FileType::AppFs) {
+            /* Open the filesystem. */
+            std::shared_ptr<fs::fsa::IFileSystem> input = nullptr;
+            if (m_options.in_file_path != nullptr) {
+                R_TRY(OpenSubDirectoryFileSystem(std::addressof(input), m_local_fs, m_options.in_file_path));
+            }
 
-        /* Process for the specific file type. */
-        switch (m_options.file_type) {
-            case FileType::Nca:
-                R_TRY(this->ProcessAsNca(std::move(input)));
-                break;
-            case FileType::Npdm:
-                R_TRY(this->ProcessAsNpdm(std::move(input)));
-                break;
-            case FileType::Xci:
-                R_TRY(this->ProcessAsXci(std::move(input)));
-                break;
-            AMS_UNREACHABLE_DEFAULT_CASE();
+            R_TRY(this->ProcessAsApplicationFileSystem(std::move(input)));
+        } else {
+            /* Open the file storage. */
+            std::shared_ptr<fs::IStorage> input = nullptr;
+            if (m_options.in_file_path != nullptr) {
+                R_TRY(OpenFileStorage(std::addressof(input), m_local_fs, m_options.in_file_path));
+            }
+
+            /* Process for the specific file type. */
+            switch (m_options.file_type) {
+                case FileType::Nca:
+                    R_TRY(this->ProcessAsNca(std::move(input)));
+                    break;
+                case FileType::Npdm:
+                    R_TRY(this->ProcessAsNpdm(std::move(input)));
+                    break;
+                case FileType::Xci:
+                    R_TRY(this->ProcessAsXci(std::move(input)));
+                    break;
+                AMS_UNREACHABLE_DEFAULT_CASE();
+            }
         }
 
         R_SUCCEED();
diff --git a/source/hactool_processor.xci.cpp b/source/hactool_processor.xci.cpp
index e6dfa00..ec8e432 100644
--- a/source/hactool_processor.xci.cpp
+++ b/source/hactool_processor.xci.cpp
@@ -207,7 +207,12 @@ namespace ams::hactool {
             }
         }
 
-        /* TODO: Recursive processing? */
+        /* If we have applications, process them. */
+        if (ctx->secure_partition.fs != nullptr) {
+            if (const auto process_app_res = this->ProcessAsApplicationFileSystem(ctx->secure_partition.fs, std::addressof(ctx->app_ctx)); R_FAILED(process_app_res)) {
+                fprintf(stderr, "[Warning]: Failed to process game card's applications: 2%03d-%04d\n", process_app_res.GetModule(), process_app_res.GetDescription());
+            }
+        }
 
         /* Print. */
         if (ctx == std::addressof(local_ctx)) {
@@ -353,6 +358,25 @@ namespace ams::hactool {
             PrintGamecardPartition("Update Partition", "update:", ctx.update_partition);
         }
 
+        if (ctx.secure_partition.fs != nullptr) {
+            s32 app_idx = -1;
+            ncm::ApplicationId cur_app_id{};
+            const char *field_name = "Programs";
+            for (const auto &entry : ctx.app_ctx.apps) {
+                if (entry.GetType() != ncm::ContentType::Program) {
+                    continue;
+                }
+
+                if (app_idx == -1 || cur_app_id != entry.GetId()) {
+                    ++app_idx;
+                    cur_app_id = entry.GetId();
+                }
+
+                this->PrintFormat(field_name, "{ Idx=%d, ProgramId=%016" PRIX64 ", Version=0x%08" PRIX32 ", IdOffset=%02" PRIX32 " }", app_idx, entry.GetId().value, entry.GetVersion(), entry.GetIdOffset());
+                field_name = "";
+            }
+        }
+
         AMS_UNUSED(ctx);
     }