It's relatively simple.
I put a BJ60 H55F behind my 03/81 BJ40 B engine recently.
- Drive shafts: As David* says above, driveshafts will have to be changed (I went ahead and ordered new, double cardan models from Tom Wood's - excellent service and excellent product if you don't have easy access to someone to modify your existing D/S)
- Shifter location will be a question. You didn't specify if your H55F is new (in which case it will always have the 60 series top plate and the 'rearward' shift tower - lots of info on this in the 40 section), or what it came out of. If (again as David* notes) if it came from behind a 3B, you'll be OK for input shaft, but still have the question as to whether that 3B was a 60/70 model or a 40. If you've got a five-speed with a 40-series top plate that's a special beast and you'll be fortunate not to have to worry about modifying the transmission hump/access cover. This isn't difficult, and not a show stopper - just cut some sheet metal and (when ready) patch up the hole so you can remount the boot - but it should be considered so you're not surprised.
- Cross member and isolator (the support that goes under the tranny). Should be the same between your (presumed) H41 or H42 four speed.
- Special tools. None that I can think of. I've never owned a specific trans jack and have changed a few by just finagling things around strapped to a floor jack. Not optimal, but with the infrequency of this work I haven't purchased that tool.
- Are you taking the split case off? Might consider ordering seals and gaskets while you're doing it.
Sorry for the amount of rambling. Bottom line, it's not difficult, but takes some planning to go easy.
HTH, Travis.-