Using caulk will make it somewhat difficult to get the rear panel off.
When Duff built his, he brought them to ZilchLab for airtightness testing, and we found the leaks, which he subsequently repaired.
Here's the method: Close the ports with ZilchPlugz™ and play a 30 Hz test tone , then listen all around using a stethoscope with the bell removed or a length of 1/4" tubing. You can download a test tone on the 'net, or use the CD supplied by Rick Cobb with his refoam kits.
For the ports to function properly, the rest of the cabinet must be well sealed. As Duff suggests, you'll likely find that the missing corners will have to be filled. Just cut some small blocks of wood and glue them flush in those locations, and the closed-cell foam tape will complete the seal.... :thmbsp: