Don't bother with Chevy axles unless it's a 14bolt... or you plan on running an Atlas or D300 tcase and flipping it over to passenger side drop.
Like stated, D44's would be good choice for 35" tires. The D60 is a little larger and wouldn't gain you anything other than being that much stronger at the loss of clearance. If you aren't planning on anything larger than 35" tires... D44 front and D44/8.8/D60 rear is what you'd want.
As far as widths go, they are all going to be much wider than stock TJ axles. How wide depends on the year, and GVW rating. 3/4-ton Fords are somewhere around 64-65" I believe, and 1-ton's are around 69". If you want to keep width to a minimum, some custom built Currie axles would be your best bet... plus they'd be bolt in upgrades. You have to consider though, if you just want to buy them all at one time, or buy used axles and upgrade them as you go.
IMO - If I knew I'd stick with 35's (I wont lol) I'd buy some RocJoc axles and be set.