Stayed at Truk Stop after a live aboard trip and the two are incomparable, wish I done an extra week on the live aboard and it wouldn't have cost me that much more to do when everything is taken into account. Remember you get excellent freshly cooked free meals, snacks and drinks including alcohol on the live aboard whilst you have to deal with the overpriced bland food, poor service and expensive drinks in the hotel.
The diving is fantastic however which option you choose.
On the live aboard we moored over the wrecks and just fell over the side of the ship when we dived. Unfortunately Truk Stop is the farthest place of all the dive operators from the wrecks which means an uncomfortable boat ride to the first dive site, a surface interval rolling about on the boat or they may dump you on an island with nothing to do or see with no facilities, not even a toilet and then a second dive before returning to the dive center. Not ideal, diving from a ship is so much better and totally recommended. I now know why when we saw the Truk Stop boat their divers often looked miserable, especially when it is raining and windy as it often is.
Truk Stop did have good local dive crew and guides, who are sadly mistreated by the owner who fails to provide them with proper equipment to do their job so they need to go to fundraising websites to get the equipment they need. Before you say they should buy they own they get paid a pittance, its just not possible. They only got a proper oxygen kit after one of their guides died. They are still woefully lacking other basic safety gear and just recently one of their skiffs ran aground and sank because they got lost and couldn't get help, fortunately no one was hurt but next time they may not be so lucky.
As for having the best equipment on the island things have obviously deteriorated in recent times as both their Oxygen compressor and booster pump are not working and now I hear that their air compressor is just hanging onto life as well.