Is that really safe? You don't want to fall on a Croll as it can tear through the sheath of a rope, and that's the last thing you want to happen to your cowstail!
That's a good question. I would say it's no more dangerous than the many situations you might use an ascender for protection.
In the situations I might use it (rescue, tension traverses...), it's a non-issue. But if you kept it for the whole trip down, then it could increase the risk in some situations.
Say you have a badly rigged (or badly bolted) traverse, with too much slack or just too low down. So you could have a rather heavy fall (maybe more than factor one). In this case, falling onto an ascender could be bad.
So yes, I think you could make a good argument that it's
not smart to keep your cowstail in the Croll the whole way down the cave, even if you find it convenient.
In the specific case of passing rebelays? If the rebelay fails, you're in essentially the same situation as you would be coming up: falling onto your Croll. And you would expect a low fall factor anyway, with the rope above absorbing the impact. So I think that's okay.
Still, perhaps the best option is to get used to passing rebelays with a "long" short cowstail, rather than a super-short one. Personally, I don't "get" why a very short cowstail is that useful here. You still have to stand up (almost) the same amount to free your cowstail, regardless of its length. Maybe someone could explain it to me?