Chosen Solution

i decided to replace my mbp thermal paste and find out that is missing parts from image a i attached

need to know what are they? also after replacing i noticing some very low crackling sound from heatsink area when cpu getting like 85-90C (its crackling 1-3 times) , it might because of pressure i applied on heatsink? or motherboard? heat expansion?

While hard to tell from your image these are conductive foam pads

They are used to prevent static buildup as well as dissipate EMI noise. Here’s one source Conductive Gasket Bar