The major problem is with the ship's reactor fuel mix. The SOT has a new type which is more efficient than the type used in older Isometrics (though will be retrofitted to all Type 43s at some stage), at high speed the new mixer got overloaded due to imperfections in the build. An improved mixer will be installed on both ships in service (F161 Sea Of Tranquility is currently in Force Voth, the new part will be sent out on the next ship sent to the squadron).
Around 43 other issues are also being dealt with, mostly software upgrades. Improvements to the tactical data multiplexor and passive sensors will also be made. Each update will only take a few hours. Indeed F162 Sea Of Serenity has already been updated and F161 has had all updates apart from the mixer.