It does not matter what kind of glue you used to build the box when going with a stained finish. What does matter is how careful you where during the gluing application. It's like this wood is much like a sponge it soaks up everything. Glues will seal the wood up preventing stains form soaking the wood causing splotches of uneven color keep your glue joints neat. Just so you know too much Elmer’s glue will do the same thing but the nice thing about Elmer’s or the like is you can wipe off any ooos with a damp cloth before it sets up. Use a good sander on the sides, face and back this should remove most glue all the other places will be hard to see anyway. Also remember a coat of paint hides a multitude of sin if you don’t like the stain then paint it. Rust-Oleum works great with a brush on wood and comes in many cool colors and yes it’s very fuel proof too.