I'm in the market for something budget in the Cocoa Beach area as well, but also something close to the port, so I'm guessing everything is going to be pretty expensive and other things need to be taken into account as well, such as how we're actually going to get to port that day. The best I've found so far appears to be EconoLodge in cocoa. Does anyone have any info on this hotel?
If you want even more budget, the www.choicehotels.com
family (of which EconoLodge is part) has some cheaper motels such as Rodeway, but they seem to be more out of the way than I would consider. Probably be better off staying in Orlando at that point.