I didn't answer the poll because I did both when I had an infected beer last summer. It was a beer I had bottled, so what I did was:
1) tossed the Better Bottle (there were visible scratches around the mouth) - I've since replaced all my Better Bottles with glass carboys - it just reduces one variable for me
2) replaced the tubing
3) replaced the autosiphon
4) tossed the bottles
The one item I didn't toss was the bottling bucket - there were no scratches on it and I bleach bombed it, including taking apart the spigot. Many bottled batches since then with no problems.