Hi Randy, welcome to Caudata.org. As long as the axolotl accepts the food and isn't floating, keep feeding it. The bare-bottomed tank is to confirm expulsion of the gravel and also to prevent it swallowing any more while it has the rest still in it. It can take up to 3 weeks for all of the gravel to leave the animal's system, assuming it isn't a permanent blockage. Most of it should be expelled in the first 5 or 6 days though.
You say you've removed the remaining mouth-sized gravel. Axolotls will eat surprisingly large pieces of gravel, so be aware of that.
And yes, I experienced it way back in 1998 when I kept my first axolotl. I never used small gravel with them again. Either use sand (not my thing personally), small pebbles, or no substrate. Right now, I'm using the last of those 3 for various reasons.
Good luck,
-John