sterio help please

we took the boat out for the sterios first trip it looks really good and sounded good but then..., first let me explane the problem and wut is happening and wut eqepment we have. allright when we bought our boat we ahd a sterio installed 2 12's, 4 6 1/2's, a 1000 watt amp, and a panosonic deck. then a coulple of weekes ago we decided we were finnaly goin to have the boat offically pimped,oo yea when we had the sterio installedthe first time we also had another batterie installed and it is isolated,so we took the boat to the sterio shop and had them make us a coustom box that held 8 6x9's. 2 down and the other 6 out he back, we also had another 1000 watt arc audio amp, a arc audio digital eq, and had it all profesonalie wierder. so we get the boat home friday nite play with it all saturday no problems. then we take it out sunday and it workes grate 4 about 2 and a half hours the boat is running most of the time, btw it sounds awesom, then after about 2 or so hours the whole sterio is running and the towere starts to kick on and off, and then finnaly the tower just stops working. i went out there a couple of mins ago and every thing woked fine untill i started to turn it up then the tower kicked off agin, the boat spekers and the subs work fine, so i dont think it is the eq, the tower is run off the front channel of the deck, and the boat off the back and sub cannel, the arc audio 1000 watt amp only runs the tower and i cheked all the wiers, so is there any thing i can to befor we take the long drive back to the sterio shop, please help chris