I wouldn't just skip the apples and do nothing - they are there to soften the stones. Instead, you can take Malic Acid capsules, that is what is in apples that does the softening. Here is one source that is very cheap:
(If this url doesn't work because it is so long, you can instead go to http://www.swansonvitamins.com and do a search for Malic) There are other sites that sell it too.