Map2Dif fix? Or maybe big waste of time....

We recently have been developing a new shader for TSE and noticed that our interiors have a lot of seams along areas that aren't overlapped. Aside from light leaking seams our shader also accentuated some seams in particularly long brushes along tall buildings and streets and what not. Here is one example (the green dots along the road):

Well everyone says to overlap the brushes to get rid of this, I forget why we were looking into an alternative, but after sifting through map2dif for a bit I came upon the fixTJuncs() method, which adds additional indeces to the windings of planes that intersect and line up to each other. After testing for awhile I noticed that the windings match all of the intersections necessary whether overlapping or just lined up. However, after calling convertToStrips() on the windings, once the engine had the vertices it would render most of the triangles in small (or large) zero width triangles along edges and would luckily render a couple large ones that would fill the plane (creating the illusion? that they were rendering correctly?). In the end I went through map2dif and the engine and added a method to create triangle fans out of the indeces and to split the planes when necessary to continue to make fans.

Anyhow, I'll just post the pictures I made of this fix and ask my major questions:
Am I just wasting my time?
Is this going to screw up collisions and other things used by the windings?

Original interior with brushes lining up (not pushed through each other)

The original planes it gets broken up into (I think, one of the debug modes)

The original wireframe (slightly edited to remove backfacing polys)

The new wireframe after my changes

Just so everyone knows, we are using TSE to develop our game, but I switched to TGE to test these seams, I used both map2dif and map2dif plus to generate interiors with the same results before my changes.

I also searched the forums as much as I could to find any information on this, and it doesn't seem to be a problem for anyone? Or maybe no one has noticed?

Thanks