Ioun Stone (amber spindle) states:
This stone grants you a +1 resistance bonus on saving throws. The bonuses from multiple amber spindles stack (up to a maximum of a +5 resistance bonus to saving throws).
Flawed Ioun Stone (amber spindle)'s are similar but:
This stone grants a +1 resistance bonus on saving throws per stone, stacking up to +3 total with other amber spindle ioun stones (flawed or otherwise).
Clearly, if you have one complete stone and two flawed stones, you have a +3 Resistance bonus. However, what if you have more complete stones with your flawed? Can you reach +5 Resistance with 3 flawed and 2 complete stones?