A new version of nds-bootstrap is coming soon, and will add DSi mode (DSi-Enhanced/Exclusive and DSiWare) support!
To prepare for the new version, the "Cannot run as a .nds file" message for DSiWare has been removed for 3DS consoles (except for the Acekard theme).
Almost all AP-patches are now included!
The only games you need to manually AP-patch, are Imagine Resort Owner, and Kirby: Mass Attack. Use this tool to do so.
AP-patches for English translations of Dragon Ball Kai: Ultimate Butou Den, Gyakuten Kenji 2 (AAI2), and Ni no Kuni, are now included as well.