Just a first hand experience... I live southeast Louisiana, just a few miles from salt water so I have salt water and fresh water at my disposal at any given time..(ten minute drive to either from my house). I primarily freshwater fish for bass, and 90% of that is more brackish than fresh... (Bass will live and thrive surprisingly close to saltwater if you've never witnessed it for your self... I often catch bass by the dozens while looking at a 30 yard stretch of land with the gulf waves rolling on the other side)
Anyway, I rarely fish for saltwater species, and even more rarely ever have live bait or dead shrimp in my boat.. But I do catch redfish quite often when bass fishing and fairly often catch speckled trout...
My point is.. I like my boat carpeted... I like being barefooted in my boat, I like how it deadens a whole lot of sound(very, very important in shallow marsh ponds)
Carpet gets pretty funky after being slimed by a few dozen speckled trout or white (sand) trout or a couple big redfish... I'm not crazy about hosing it down being that my decks and flooring is untreated plywood..(I'm seeing delamination on my front deck already after 2 years just from weather, and my boat is stored out of the weather)..(I'm fixing to gut it completely and redo everything with better materials)
Back to my point.. If you want carpet, go for it, but get good carpet(I went cheap and it shows in just 2 years) if you don't, the hydro turf and sea deck is super awesome but it's pricey for sure!! And I'm not real sure on how well it glues to plywood...