I found some bugs. I don't know if anyone has written this before.
1. The Boat destroyes buoys and ports on the waterway. (non waterway boat)
2. When the Hovercraft mod is on i can't place Boat on the water nor waterways.
3/1. When the Noxys Swimming mod is on i can place the Boat on the water and waterways, but i can't place it on the Deep water and the waterways on the deep water if the deep water swimming is off.
3/2. When the deep water swimming is turned on the Boat is using the adjusted swim speed of the mod.

Hi. thanks for the report.
Issue 1: does sound realistic :P well might fix in the future but its not such a trival fix with the way how collision masks and the water-tile layer work.
the other issues are honestly things that best would be fixed in the respective mods. Its logic they are adding that s causing them, and it would be cleanest to fix it right there. maybe report the bugs on their mod pages? if it doesnt get fixed there, i will do it, but as ai said, would be better if its adressed there.

ended up fixing issue 2 on my side

Thanks for the work. I know its hard to concentrate the mod upgrade when different mods causes bugs. Btw i love the mod and i dont play without since 0.0.2.