Thanks for your info.You can file your your study visa and SOWP, they will be processed on its own merits. It will have no bearing on your PR application.
As per subsection 22(2) of the Immigration and Refugee Protection Act dual intent is allowed
(2) An intention by a foreign national to become a permanent resident does not preclude them from becoming a temporary resident if the officer is satisfied that they will leave Canada by the end of the period authorized for their stay.
Does it affect my fiance application in process? Would it take longer as well?