You mentioned MDF and ply in the same post, which set off my alarms. When I built a small bench, I was struggling with Ply for strength or MDF for smooth working surface, so laminated the two together for my bench. It works great... as a weather forecaster. The dissimilar materials expand at different rates, so sometimes my bench is convex and other times concave. Not a lot, but enough to bug me. The MDF has held up well enough that I would probably do MDF only in the future. If you don't have a vacuum bag to laminate the layers together, screw them together (lots of screws) from the bottom while the glue dries, then remove the screws. (Laminating is important... two layers of MDF is twice as strong as one, but one layer twice as thick (after lamination) is 8 times as strong, not just 2 times. (There is a third power in the formulas).
CA glue has a funny property of no impulse strength. I know a fine woodworker who glues guides to his furniture for doing curved inlays, then removes them with a sharp tap from a metal hammer. The jar of the hammer-hit destroys the adhesive property of the CA glue, and the templates pop off without damaging the work piece. I bought some MinWax wood hardener to turn some punky wood, and it worked well. I have since done a lot more work with epoxy, so would probably go that route... if the holes needed it or started to fail.