Because the roof racks were a port/dealer installed accessory, the installations were not necessarily up to the same Toyota quality standards as the rest of the truck. Rust is often found around the nutserts that are holding it on and eventually that leads to leaks into the truck. For fishing poles, the carrying capacity is probably just fine, but there are a few stories I have read on here of the whole rack removing itself at highway speeds when a significant load was put on it and the original connections were rusted. Especially on a road salt exposed NY truck, I would at least pull it and check for rust under the feet.
As an example of poor installation quality, my LX "factory" rack was installed so that one of the front feet just barely contacted the sunroof gasket. I'm sure it was fine to get it out the door at the sale, but over time it wore a hole in the sunroof gasket and it became a leak point. Just not up to Toyota standards.