I am happy to report success! When I originally posted this - I had the jumper all mixed up. With your advice to check that and floppy cable connection I got everything fixed through trial and error.
Ultimately this is the combo of things I learned to install the the REV F into a MPC 60MKII (which fits almost perfectly into the existing drive space):
1) Only one of the existing brackets (the rear one) that secure the factory floppy will screw into the HXC. If you want to use the front one you will need to rig it in there with some sort of modification. However it is plenty secure for me - as my MPC doesn't get moved much.
2) You will need to file down the nub on the power supply connection to get a nice fit on the HXC.
3) The single drive with a twisted ribbon cable jumper configuration worked for me. Use a single connector single placed vertically over ID3A row,
4) The floppy connector should have the nub facing up to work.
Here are the pics in case anyone is more of a visual learner like me.
And the final product