I ran it very infrequently and mostly against outside teams (though I did run with it in my PL a few seasons back too when I wanted to go with a lineup with four outside shooters for giggles). The things I will say:
Definitely, you want to find out if you have anyone that's aggressive and if so strongly consider something other than a zone. My bookmarked game with 1-3-1 is a prime example (
(65823062)) - my starting center, Busch, was a quite solid defender for the most part but he liked to foul on occasion. He actually cost me promotion to the NBBA by picking up two flagrants in a minute late in the third in a game I was winning by 14 with a tendency-breaking LI, but it really only worked with him in the position he was playing - once he went out, my offense went to crap and the lead kept bleeding away. So, look at the opponent's PG's stats from the line - Busch kept coming out from the center to try to block shots from the PG or to try to steal the ball, got called and sent the guy to the line.
Also, if you're going to play 1-3-1, you want to make sure your starters at all four non-C positions have very good OD. I had another game where one of my four guys got injured and my backup center had to come in and defend at I think the SF position. Fortunately he got a few shot blocks, but I seem to remember him also being abused by the opposing player from outside. Since all four of those guys could be called on to contest 3s and jump shots, you don't want a guy with low OD that would give your opponent great chances to hit outside shots. They still sometimes miss a lot because of the randomness of outside oscoring in the game, but you have to have the OD at all four spots.
I agree that the rebounding is a significant challenge. The lack of ID by itself isn't necessarily the major problem against an LI, since you should be able to prevent a lot of the easy dunks thanks to your strong OD in the zone, but the problem I ran into in general even with the 3-2 would often be cases where you play good defense for 24 seconds, force a bad shot, then the big man grabs the offensive board and puts it back up. It's really frustrating when you block the putback, they get it again you block that, fumble the rebound out of bounds, and so on and so forth, but they score on fourth or fifth attempts.
The guards with decent RB will help, arguably more on the offensive end. But I don't think they'd address the opposing guy just playing volleyball, and I never had nearly enough RB to test the uber-defensive/rebounding center in the middle.