A pic would help, I can't "see".
My 24' '06 pontoon originally, yes, was 3 sections/ compartments...nose cone, center, and aft.
My new toons are in 5 sections. (another story).
I wouldn't know what's "best", I'm not an aluminum welder and a toon repairer.
If it was mine:
I'd take it to my guy...