Ok now i see.
Well aren’t you curious why the exact same problem appears to be in 2 different DAW. ? 
I see now you use Asio4all with your onboard sound.
I redid your test and your system is flawed anyways. I have a dedicated audiointerface with a proper Asio Driver. When i do a loop back for audio what you did with Track 1 and 2 in your test i get a completely sample accurate recording with a buffer setting as high as 4096 and a RTL ( 92ms in/out)
There is an error in your Latency Compensation anyways. The looped back audio recording should be without any delay if the driver reports the correct latencies wich in your case is apperantly not the case.
I also did a pure midi to midi loop back. The recorded midi has a jitter of about 1 ms in my setup
Than i did a midi recording on an piano vst with the maximum buffer setting. As to be expected i will press the keys to early and the recorded midi is upfront. when i turn on Asio latency compensation the recorded midi is shifted by my output latency. Everything works like it supposed to here.