It will fit with some modifications...
1. The FJ40 tranny/t-case combo uses a crossmember underneath the transmission. Best way is to retain this and fab it onto the FJ40. You could also build your own crossmember off the bacl of the t-case like a AA one. Another option is to just rely on the 4 mounts that the FJ40 has now... 2 Front and 2 on bellhousing but I wouldn't do it. had a customer break a bellhousing doing this.
2. Tranny tunnel mods will need to be made. the top cover of the 60 is different than 40, you can probably just swap the two and leave it in the same spot, but the t-case one will need modification.
I think thats it...
Disclaimer: Been up all night studying for a Calc. test...

I can't think let alone recall data out of storage...
