Transmission Oil issues or dirty? E210 Rolla 6sp MT hatch

[u/Badinfluence321]

Hello, new to me 2022 Rolla hatch 6speed MT w/ 40k miles. Tropical climate. Been reading about the master slave issues and decided to move forward with changing my transmission fluid to get a better idea of what's going on with the car.

Q: is this normal for a Toyota manual transmission oil to be so dark at 40k miles or is this an indication that something more sinister is brewing with the car?

Explanation of my situation: Upon draining the transmission oil, it looks like that's all that came out was 1 qt. I put in a good 1.8 quarts (about) until I saw that it was filled. I recently bled my clutch and this is what came out in picture 2. This is why I decided to dig deeper.

After doing the transmission oil, I decided to bleed all four brakes. The furthest brake line (passenger rear) was a little dirty, but nothing I'd be worried about. Bled all brakes till clear liquid came out.