I just got done chasing electrical gremlins in the Jimmy so I will give you a rundown of what I found and what I did.
I drive 5 miles to work and maybe 9 miles on the way home if I go through town. I have dual batteries, no disconnect, grounds from each battery to the upper radiator support and the block. Battery cable to the alternator is #2 and wire to the starter is #1/0. Gear reduction starter and at the time a brand new stock alternator. Pioneer stereo that may have had a slight draw but couldn't find any other draw by pulling fuses. Alternator was putting out 13 to 14 volts to the original gauge in the dash. I would frequently have problems getting the engine started. Slow starts, longer than normal cranking times, etc. After a weekend of not driving, sometimes I couldnt get it started without a jump start. Kept checking allkinds of stuff and then I ran across someone on this list saying how well they liked their Powermaster alternator. So I started looking at new high amp alternators and Powermaster was the only one who would actually give info on what their alternators put out and at what RPM. I figured 100 amps at idle was good enough for me so I spent the bucks and got one. Charged both batteries separated before I installed the alternator and I haven't had a problem one since. Not one.
After upgrading all my cables, my problem ended up being not driving long enough to get the batteries charged up enough. 102 amps at idle is a whole lot better than 63 at some unknown RPM (probably top end RPM).