I too would relocated the filters, but I note there's very little total clearance between the diamond-plate and the overhead. The aqualift next to the diamond plate shows that there's a few more inches to the bilge but I'll bet there isn't another bulkhead location that will work. If you can pop the flex duct and there's room to remove the filters, then probably best off to leave them.
But I doubt they will fill via gravity, so a pump will be in order. As noted, not just for pushing fuel into the filters but (with appropriate fuel plumbing) for transferring between tanks and for polishing.
And...I think these are probably the wrong filters anyway - they look like 1000 series, and I have to believe that the 500 series would be appropriate for the fuel flow for the engine(s) that would fit in this space.