Bent rim on a hard pull out of a chamber causing the rim not to fit into the shell holder.

If you take a good look at the rim, will notice a nastly bur in the top of rim from the extractor, and is half of the problem.

So you can clean up the case rim, but since 45ACP brass is so plentiful, when you run across a few cases like this, just throw those pieces of brass away.

Also to point out, if the cases where fine, and now a problem on the second loadings, really need to check your extractor, and the loads since they may be going way over pressure.

Good write up on extractor cleaning and tuning,
https://www.m1911.org/technic2.htm

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As for 45acp cases head spacing correctly in a production barrel, going call BS on this.

Hence production barrel is end of chamber cut a few thousands long, the brass is a few thousands short, and if the sized brass head spaced correctly in your rig with say a match barrel fitted, all the cases would end up with the rim of the case .001" longer than the hood of the barrel with the mouth of the cases tight against the end of chamber cut.

So when loading 1911since we know that the end of case is going to be well shorter than the end of chamber cut, we worry about the COAL of the round since we know that head spacing is not going to come in play.

Hence the rim of the case is .003" shorter then hood of the barrel with that  bullet type just touching the rifling, so we end up with a .004" jump to lands with that bullet type in that barrel for the correct COAL's loads instead.
Note, sheet of printer paper is about .004" thick and again, the case mouth is going to be no where close to touching the end of chamber cut with the slide locked home, since the extractor is holding the rim tight against the slide face at lock up, and the end of case well off the end of chamber cut.

Yep a bur that's easily taken off by a few strokes of a file.

Happens with all brands and semi auto calibers in rifle and pistol.

Double check the shell holder for burs, but will bank that the cases that will not slip into the shell hold, if you took the brass bottom of rims to a lapping plate with say 400 sand paper, will find that the end of rims have been bent on the last firing, and why the will not fit the shell holder.  So it not the rim thickness, but the rim C bent enough that when you run the brass on a lap plate, the edges of the rim is C bent back that is just the edges of the rim that will be sanded (and not anywhere near the primer channel isntead).