Hi Rich and welcome,
There have been many discussions about the solar hookup part of your question for various Winnebago travel trailers. And, it seems there is not one answer for all users.
If I remember correctly many or most of the past posters decided it was best to go the direct to the batteries route.
Having panels with mismatched wattage isn't really the issue, it's uncertainty about how the external connection is wired into the RV's existing electrical system. Winnebago has not be completely consistent with this connection.
On many RVs they wire the external port directly to the solar charge controller. When that is the case you must have external solar panels without a charge controller - because the port connects to the existing controller. You can't have two controllers connected to each other.
But on other RVs Winnebago connects the external port directly to the batteries without a controller in the loop. For that system you MUST use external panels that have a solar charge controller built in... or you must put one between your panels and the external port.
Making things more difficult many have found it difficult to find a portable solar kit without a built in solar controller. They are certainly available, but harder to locate.
So, to make things easier, many buy a portable kit with a solar charge controller built in and simply connect it to the batteries with alligator clips.
How you proceed is up to you. But at least you've got some info to go on.
The batteries are up to you as well. 2-12v 100aH batteries in parallel will provide 200aH of storage. But most 6v Flooded batteries are slightly higher at 220aH and two of them in series will provide 220aH of storage. So, it's only 20aH difference.
The 6v batteries are cheaper - but require constant maintenance, are extra heavy and take longer to recharge.
A great many old school RVers will say go 6v Golf Cart batteries all the way. But an equally large number of RVers will say get 12v AGMs for the long life and ease of use.
A growing chorus of modern RVers will say go with Lithium Iron Phosphate for deeper discharge, faster recharging, lighter weight and even longer life.
There is no one answer to any of these questions for all RVers.
2017 Winnebago Adventurer 37F
2016 Lincoln MKX Toad