Rattle Rattle

Been a while since I have posted and I haven't worked on the car too much either. It has been very hot here and school has started as well as the second busiest time of the year for me at work. I am discouraged a bit because I am so close to having all the components hooked up and operating, but there is a minor issue. I am going to post a couple videos here and would love to get some comments but I need to explain them a bit.

I wanted to hook up some batteries to the controller and motor and do some tests in various gears, but didn't have tranny fluid. I filled the tranny with what I thought was the recommended fluid. At least thats what Pep Boys said. I also saw some posts online that it should take about 1.9 quarts. Well, Pep Boys was wrong and what I read online about fluid level was about the next model up of my vehicle. So, I had the wrong fluid, although probably not much different, and was a half quart shy. Here is a recording I made. The tranny is making noise. It is tough to hear because the brakes are rusty and are also making noise.

I was not happy about this at all. I talked to some guys and researched a little more. I got the correct fluid and filled it all the way up. I also removed the front wheels. One wheel is flat and the car had been sitting on it for a while so the balance of the wheels was probably causing issues. Here is the next video after making these changes.

A little bit of knocking at the higher rpms but tough to hear over the brakes. Much better than before though. In the first video the knocking only happened when I let off the throttle. This may be due to the flat tire and not quite full fluid level. In this video the knocking sound happens at the higher rpms, but does not make any sound when I let off the throttle. It is in 5th gear for this video. In the next video, I put it in 2nd gear and it is much smoother. I don't hear the knocking.

So, in 4th and 5th gear when the rpms get higher it starts to knock a bit. Does anyone think this is an alignment issue with the motor, adapter and input shaft? Could it be the old rusty brakes causing uneven amounts of resistance on either side and it causes the noises at higher rpms? Should I install all the batteries and put the car on the ground and get it rolling a bit to see how it acts with wheels and weight? Could it be that the tranny just needs some more time to get the oil in there and worked around? Any other thoughts? Please comment and let me know what you think.