| Package | database | Database abstraction layer |
| Package | domain | Domain classes, the business logic in Stoq |
| Package | drivers | Stoqdrivers integration |
| Module | enums | Database enums |
| Module | exceptions | Exception and warning definitions |
| Package | gui | Graphical User Interface: Dialogs, Editors, Search, Slaves, Wizards etc |
| Package | importers | Database import |
| Package | lib | Generic class/method library |
| Package | reporting | Report generation |
| Package | test | Undocumented |