| Command Header, prior to 3.0.0-5 | Available since system version | Description | 
| 0x000101C2 | 1.0.0-0 | OpenFile | 
| 0x00020142 | 1.0.0-0 | DeleteFile? (unknown_u32, archivehandlelo, archivehandlehi, pathtype, pathsize, pathptrsize, pathptr) | 
| 0x00030244 | 1.0.0-0 | RenameFile? (unknown_u32, archivehandlelo, archivehandlehi, pathtype, pathsize, secondarchivehandlelo, secondarchivehandlehi, secondpathtype, secondpathsize, pathptrsize, pathptr, secondpathptrsize, secondpathptr) | 
| 0x00040142 | 1.0.0-0 | DeleteDirectory? (unknown_u32, archivehandlelo, archivehandlehi, pathtype, pathsize, pathptrsize, pathptr) | 
| 0x00050202 | 1.0.0-0 | CreateFile? (unknown_u32, archivehandlelo, archivehandlehi, pathtype, pathsize, unknown_u32, unknown_lo, unknown_hi, pathptrsize, pathptr) | 
| 0x00060182 | 1.0.0-0 | CreateDirectory? (unknown_u32, archivehandlelo, archivehandlehi, pathtype, pathsize, unknown_u32, pathptrsize, pathptr) | 
| 0x00070244 | 1.0.0-0 | RenameDirectory? (unknown_u32, archivehandlelo, archivehandlehi, pathtype, pathsize, secondarchivehandlelo, secondarchivehandlehi, secondpathtype, secondpathsize, pathptrsize, pathptr, secondpathptrsize, secondpathptr) | 
| 0x00080102 | 1.0.0-0 | OpenDirectory (archivehandlelo, archivehandlehi, pathtype, pathsize, pathptrsize, pathptr) | 
| 0x00090142 | 1.0.0-0 | ReadFile | 
| 0x000A00C2 | 1.0.0-0 | CalculateFileHashSHA256 | 
| 0x000B0182 | 1.0.0-0 | WriteFile | 
| 0x000C0104 | 1.0.0-0 | CalcSavegameMAC | 
| 0x000D0080 | 1.0.0-0 | GetFileSize | 
| 0x000E0100 | 1.0.0-0 | SetFileSize (sizelo, sizehi, filehandlelo, filehandlehi) | 
| 0x000F0080 | 1.0.0-0 | CloseFile (filehandlelo, filehandlehi) | 
| 0x001000C2 | 1.0.0-0 | ReadDirectory (dirhandlelo, dirhandlehi, count, ptrsize, ptr) | 
| 0x00110080 | 1.0.0-0 | CloseDirectory (dirhandlelo, dirhandlehi) | 
| 0x001200C2 | 1.0.0-0 | OpenArchive | 
| 0x00130102 | 1.0.0-0 | CreateExtSaveData? (archivehandlelo, archivehandlehi, pathtype, pathsize, pathptrsize, pathptr) | 
| 0x00140102 | 1.0.0-0 | (archivehandlelo, archivehandlehi, pathtype, pathsize, pathptrsize, pathptr) | 
| 0x00150102 | 1.0.0-0 | (archivehandlelo, archivehandlehi, pathtype, pathsize, pathptrsize, pathptr) | 
| 0x00160080 | 1.0.0-0 | CloseArchive (archivehandlelo, archivehandlehi) | 
| 0x00170080 | 1.0.0-0 | ReopenArchive? (archivehandlelo, archivehandlehi) | 
| 0x00180000 | 1.0.0-0 | GetCardType | 
| 0x00190000 | 1.0.0-0 | GetSdmcArchiveResource | 
| 0x001A0000 | 1.0.0-0 | GetNandArchiveResource | 
| 0x001B0000 | 1.0.0-0 | GetSdmcFatFsError | 
| 0x001C0000 | 1.0.0-0 | GetSdmcDetected | 
| 0x001D0000 | 1.0.0-0 | GetSdmcWritable | 
| 0x001E0042 | 1.0.0-0 | GetSdmcCid | 
| 0x001F0042 | 1.0.0-0 | GetNandCid | 
| 0x00200000 | 1.0.0-0 | GetSdmcSpeedInfo | 
| 0x00210000 | 1.0.0-0 | GetNandSpeedInfo | 
| 0x00220042 | 1.0.0-0 | GetSdmcLog | 
| 0x00230042 | 1.0.0-0 | GetNandLog | 
| 0x00240000 | 1.0.0-0 | ClearSdmcLog | 
| 0x00250000 | 1.0.0-0 | ClearNandLog | 
| 0x00260000 | 1.0.0-0 | GetCardSlotInserted | 
| 0x00270000 | 1.0.0-0 | CardSlotPowerOn | 
| 0x00280000 | 1.0.0-0 | CardSlotPowerOff | 
| 0x00290000 | 1.0.0-0 | CardSlotGetIfPowerStatus | 
| 0x002A0040 | 1.0.0-0 | CardNorDirectCommand (These CardNor commands are used for accessing the raw gamecard flash savedata) | 
| 0x002B0080 | 1.0.0-0 | CardNorDirectCommandWithAddress | 
| 0x002C0082 | 1.0.0-0 | CardNorDirectRead | 
| 0x002D00C2 | 1.0.0-0 | CardNorDirectReadWithAddress | 
| 0x002E0082 | 1.0.0-0 | CardNorDirectWrite | 
| 0x002F00C2 | 1.0.0-0 | CardNorDirectWriteWithAddress | 
| 0x003000C2 | 1.0.0-0 | CardNorDirectRead4IO | 
| 0x00310082 | 1.0.0-0 | CardNorDirectCpuWriteWithoutVerify | 
| 0x00320040 | 1.0.0-0 | CardNorDirectSectorEraseWithoutVerify | 
| 0x00330080 | 1.0.0-0 | GetProductInfo | 
| 0x00340040 | 1.0.0-0 | SetCardSpiBaudrate | 
| 0x00350040 | 1.0.0-0 | SetCardSpiBusMode | 
| 0x00360040 | 1.0.0-0 | SendInitializeInfo | 
| 0x00370140 | 1.0.0-0 | CreateExtSaveData | 
| 0x003800C0 | 1.0.0-0 | DeleteExtSaveData | 
| 0x00390082 | 1.0.0-0 | EnumerateExtSaveData | 
| 0x003A0100 | 1.0.0-0 | GetSpecialContentIndex | 
| 0x003B00C2 | 1.0.0-0 | GetLegacyRomHeader | 
| 0x003C00C2 | 1.0.0-0 | GetLegacyBannerData | 
| 0x003F0000 | 1.0.0-0 | DeleteSdmcRoot | 
| 0x00400040 | 1.0.0-0 | DeleteAllExtSaveDataOnNand | 
| 0x00410000 | 1.0.0-0 | InitializeCtrFilesystem | 
| 0x00420000 | 1.0.0-0 | CreateSeed | 
| 0x00430042 | 2.0.0-2 | GetSdmcCtrRootPath | 
| 0x00440040 | 2.0.0-2 | GetArchiveResource | 
| 0x00450002 | 2.0.0-2 | ExportIntegrityVerificationSeed | 
| 0x00460002 | 2.0.0-2 | ImportIntegrityVerificationSeed | 
| 0x00470082 | 2.0.0-2 | EnumerateSharedExtSaveData | 
| 0x00480102 | 2.0.0-2 | GetLegacySubBannerData | 
| 0x00490042 | 2.0.0-2 | Initialize (?) | 
| 0x004A00C2 | 2.0.0-2 | OpenSpecialFile? (archivehandlelo, archivehandlehi, size, ptrsize_mul2, ptr) | 
| 0x004B0102 | 2.0.0-2 | ReadSpecialFile | 
| 0x004C0040 | 2.0.0-2 | GetSpecialFileSize. cmd[1] = must be value 0x0. Writes the u64 size to cmdreply[2-3]. |