My launcher is messed up. All the pages are missing and my icons are missing. if i do a universal search it finds the app but otherwise cant see them.

Thus far i've removed all my patch's run "emergency patch recovery", run save/restore (not sure if i did that 100% correctly but seemed like i did, and all the "emergency" programs from preware.

While running the "emergency file verification" i get an error installing.I have attached the IPKG log below. do you think this has something to do with it?
Does anybody know how i can fix this problem?

-1: Unable to run command: IPKG_OFFLINE_ROOT=/media/cryptofs/apps /bin/sh /media/cryptofs/apps/usr/lib/ipkg/info/org.webosinternals.emergency-file-verification.postinst 2>&1
Detected stock files modified via a method other than supported patch technologies:
File: /etc/.rootfs_RW
File: /var/lib/software/tmp/flashing-progress.tga
File: /var/palm/data/smartkey/autoreplace_query_terms
File: /var/palm/data/smartkey/key_dict_us
File: /var/palm/data/smartkey/key_dict_us_1-18_4_flat
File: /var/palm/data/smartkey/key_equiv
File: /var/palm/data/smartkey/key_skipped
File: /var/palm/data/smartkey/memmaps_autoreplace_freqs
File: /var/palm/data/smartkey/memmaps_autoreplace_nodes
File: /var/palm/data/smartkey/memmaps_autoreplace_scores
File: /var/palm/data/smartkey/memmaps_autoreplace_words
File: /var/palm/data/smartkey/memmaps_freqs
File: /var/palm/data/smartkey/memmaps_nodes
File: /var/palm/data/smartkey/memmaps_scores
File: /var/palm/data/smartkey/memmaps_user_freqs
File: /var/palm/data/smartkey/memmaps_user_scores
File: /var/palm/data/smartkey/memmaps_words
File: /var/palm/data/smartkey/user_words
Removing package org.webosinternals.emergency-file-verification from root...