The comment relates to the conventional systems where you don't have variable speed facility. If the designer keeps in mind the above 10% rule and if the fan static is designed accordingly, it may go to shut off condition with increase in system resistance.
If, for a constant speed system, the fan is designed at the expense of initial higher flowrates than required then the conditions can be maintained though the filters load up. The pharmacopeial requirement of no. of ACPH for class 10000 is mere 20 and for class 100000 it is 10. If the studies show the particle concentration below the class limits, air flowrate never matters.
Interestingly, HEPA efficiencies go up as they get loaded.