Hi Chenyan,
You are correct, the ground plate is never perfect and coupling from differential circuits does not completely cancel out. However, many other things if not all in our designs are not perfect and we need to live with them like this.
In a "good" conductive capacitor plate located above differential circuits, the inputs/outputs and differential signals couple capacitively equal magnitude and opposite phase signals, which of course if we assume negligible resistance and inductance in the plate cancel out. We know this is never the case, but we know that this cancellation phenomenon happens to some extent, not completely. Besides these differential signals differential circuits may couple transient switching signals, which are "single ended" and thus do not have equal magnitude and opposite phase cancellation signals. However, this coupling is much smaller than in the case of single ended CMOS logic.
So yes, some coupling still occurs from differential circuits and it will always happen through different mechanisms even if we do not place the MIM cap filter above circuits. The effects and impact of this coupling on performance needs to be evaluated on each specific case, and the necessary performance-cost tradeoff needs to be decided also in each specific design.
Regards,
Cosmin
NoiseCoupling.com
http://www.noisecoupling.com