With any engine swap, you are going to have to swap the engine wiring harness and ECM too.
The 1.3 carbed, 1.6 8V EFI, and 1.6 16V EFI used in trackicks all use the same tranny. The only difference is that the carbed 1.3 uses a different bellhousing, but the main part of the tranny is the same....so it is a simple bellhousing change, if you want to use a 1.6 engine on a 1.3 trackick tranny.