From the evidence I've seen posted it sure looks to me like both the caramel kinking and the spider spinning are some how linked to the actual mutant gene and not due to inbreeding concentrating separate genes causing these problems.
I've heard reports of lots of the original imported caramels being kinked as well as kinks from captive breedings involving possible hets (i.e. outbred). I’ve not heard of any kinking in the non caramel siblings either. If the kinking was caused by genes other than the caramel genes in those lines it should show up just as often in the het and possible het siblings of caramels.
Being dominant, spider is probably one of the most outbred morphs there is yet the condition seems to continue to show up from time to time. There are probably lots of spiders out there that are the result of several consecutive generations of outbreeding with no captive inbreeding at all.
Now it's still possible that outbreeding might stumble on genes that can compensate for these problems but it doesn't seem that inbreeding is causing either.
I'm less sure of what, if anything, might be going on with pied. However, with the sporadic het pied marker and the high initial price I believe a heck of a lot of outbreeding has already gone into that line (i.e. het males and even possible het males X normal females). If there is a problem I would again tend to wonder if it's a side effect of the piebald gene it's self and not due to inbreeding concentrating independent negative genes.
I'm not saying we will never have an inbreeding problem, I've just not seen any evidence of one in ball pythons yet. Not really surprising considering they have only been captive bred in any real number for 10 years or less and there are still 10's of thousands of wild bred animals exported from Africa every year.