Do you have the tubing submerged in Starsan all the time? I do and it gets almost opaque white. When I dry it it gets clear again.
Tubing is hard to clean and worse once it's dirty. I have long brushes and I also send a wad of fabric with cleaner down on a fishing line... back and forth.
The best way is to clean tubing right away. Rinse out with hot water, soak in some PBW, rinse well again, then in a bucket with Starsan. Then there may still be some residue stuck on the inside...
So yes, hoses, racking canes and siphons could be a potential source of bugs. But you had the problem from the first brew already, and that makes little sense, 'cause all your equipment was new then. I still suspect the bottling process.
It is possible something gets into your starters and takes over after the yeast is done, like Lacto, Pedio, or Acetobacter. Brett is slow acting and would take much longer to show its presence, and is not sour, more funky. Is there any scum or pellicle in the necks of the bottles, particularly the older ones? Or a pellicle/haze in your fermentor after a few weeks?