I have been told I shouldn't use linear polarized antenna, with the circular ones, But I have no idea what these are! 
I know my cloverleaf antennas are CP, but what about Linear Polarised?

I only plan to run circular polarized for the time being. I do have a few whip style antennas and those must be circular, correct? since they worked with my CP that is on my quad, the whip is on my ground station.

yeah your cloverleaf is circular polarized antenna, but the whip is linear polarized, it works with CP but not very well, you will get very limited range.

A linear antenna transmits the wave in the same orientation as itself. If you were to take another linear antenna on the other end and turn it 90 degrees, you'd lose roughly 28db of power. That is extremely substantial.

A linear antenna receiving from a circularly polarized antenna loses about 3db of power and due to the constantly changing orientation of the aircraft you'll see drop-outs and interference more frequently.

A circularly polarized wave is essentially a wave in the form of a circle spinning either right hand or left hand. With an aircraft constantly changing orientation, a circular wave isn't effected when being received by a circularly polarized antenna because even with the aircraft on its side doing a roll, it's still transmitting a circle which looks the same as when it's flying horizontal.