The new FPGA on the minimig can hold two 68k cores (one for the minimig and one for replacing the PIC functions) and still hold the minimig core and only be at 3/4 capacity. The other TWO 1k30 and 1k100 FPGAs I believe are not used very much or almost empty. I would imagine that some more functions like HD/HDFILE support, A1200 clock port (c-one has one), PCI (C-one has one) and some sort of floppy support (maybe not amiga). The C-one uses compact flash and unlike minimig has cores for other computers that can be chosen via an interface at boot. It is a lot larger but is almost ATX form factor and uses ATX power. It also has space for two SID chips and a Commodore 64 cartridge port. The ATX back plane has RCA audio, VGA, Serial, IEC and a few other ports.
I also see they have a NTSC core and a PAL core. They have two time sources for NTSC and PAL.
I had also read that clone-a testing might be done on this setup as well. I don't know how Jens will choose who gets to beta-test Clone-A but it sounds fun!
The core source has been released as well so if you know how to work with it, you can expand it!
Here is the link to the softcore 68000 that TG made.
http://www.opencores.org/projects.cgi/web/tg68/overviewTim