after some tests, I think in Pd, the first "clicks maker" is certainly the graphical system.
But I think too it depends of your computer performance.
with this patch : http://impala.utopia.free.fr/pd/patchs/test_limitations_pd.pd
after 10 [osc~] added, it makes clicks when I move > 10 [osc~] after 60 [osc~] added, it makes clicks when I delete/create > 10 [osc~] after 252 [osc~] added, it makes sometimes clicks when I delete/create just one [osc~]
Certainly audio connections are fragiles, and connect/disconnect audio objects is a origin of clicks too.
jerome http://impala-utopia.org