If you have found shoes that you find really comfortable but they leak, I would just accept it but be selective what you use them for.
I always hike on full leather boots that are waterproof when new, but after about 500 km the first leakage starts and it will get progressively worse over time (we have had this discussion before). I will then still hike on them for many more miles as long as they are comfortable, just not on very wet multi-day adventures. They are definitely far from being a write-off at that point!
If I start a long adventure that is likely to be very wet, like the Kungsleden or the Cape Wrath Trail I start off on a new pair and will have dry feet the entire hike. Once they start leaking badly, I demote them to day-hiking boots or I use them for multi-day adventures in relatively dry areas until the soles are worn out.
So I typically have several pairs of the same boots in various states of wear. The newest boots are used for wet multi-day adventures. One notch below can still be used for multi-day with occasional wetness (provided that the thread is still OK) and even for quite wet day-hikes, depending on how bad the leakage is (my feet can stand it for one day). The lowest tier will be for dry walks on easy terrain and even for going shopping in town.
The philosophy is that because boots are expensive, I avoid using the least worn ones as much as possible, not to wear them out but save them for walks where waterproofness and good thread are really required. If not, I can use lower tier ones. This way I hope to get as many miles as possible out of my £££