Doesn't sound good to me, but some pictures would help. You'll need more than a few wood knees to hold the deck together once the boat starts twisting over the ocean swell (a knee has to have something structural to work on) and the last thing you want in a storm at sea to have the deck open up on you.
In sheltered waters you might be fine, but if you're planning a 2-year cruise away from quality repair
facilities, best get CharlieCobra onto it right now. Give him a call - he will know what to do.