Hi Al, it’s nice to hear you are still married. Sounds like she’s a keeper.
Hatches: Buy new Hobie hatches and make sure they are the ones that can also utilise the orange Cat Bag or orange Fat Bag. The bags come in very handy for drinks, lunch, phones, halyards, etc. As per above, bolt them in, don’t use rivets or screws. I use nice dome head (Allen key heads) with a decent size washer underneath and a nylon nut. I use Sikaflex adhesive sealant. Don’t use Silicone sealant, it’s a nightmare in any marine application.
Gybing: when the boat is half way through the gybe, you should be the one that is passing the mainsheet/boom through the gybe, not the wind. If you pass it through by grabbing the mainsheet system and flipping it from one side to the other, it will a more controlled, less viscous gybe. If you wait for the wind to do it, it becomes an unknown quantity and time and therefore more viscous. Pull it through about 2-3 seconds before you think the wind would do it. It then gives you more control and better timing as to when you pass the tiller around the back. This is generally best done with you kneeling on the trampoline in the centre of the boat and reaching over to flip the mainsheet system (and thus the boom and sail) towards you, past you and to the other side. As you do this you can also inform your crew of the timing. If you wait for the wind to do it, it is all an unknown time and higher risk.
The volume of water you took in sounds like a hole in the boat. It would be unusual to take in that much water via a poorly sealed hatch. Check the bungs are still sealed. Check the dagger board case for any splits or damage. Check under the gunwale lip for any cracks. In fact, get your wife to do it. Sounds like she might enjoy it!