Unfortunately, whereas Oblivion and earlier ES titles encapsulated the script source and compiled code neatly in the ESP/ESM, Skyrim now separates them into separate PSC (source) and PEX (compiled) files. (IMHO this is an unnecessary and messy step backwards that leads to all sorts of problems, and I hope this is the last TES title to do this.)

One of the problems has already appeared: When you install the Creation Kit, the Data\Scripts\Source folder is populated with the PSC source code files for the stock PEX scripts.
Unfortunately, however, these PSC files don't appear to have been updated since the 11-11-11 release. For any that have been edited in official patches, the existing PSC source is out of date. For 7 scripts that were added by patches, there is no source code at all.

The following scripts were changed in one of the the official patches and it doesn't appear that their PSCs were updated. Therefore recompiling them can overwrite existing fixes and cause bugs:

c05questscript.pscda02bookscript.pscda02script.pscda07questscript.pscmg06armillaryscript.pscmgrapponmund1questscript.pscmgrarniel03scontainerscript.pscmonitoralivecountscript.pscmq302script.pscms11questscript.pscms12bquestscript.pscplayerbookshelfcontainerscript.pscqf_bardscollegedrum_000d944f.pscqf_bardscollegeflute_000d9431.pscqf_bardscollegelute_000d93fa.pscqf_da02_0004d8d6.pscqf_mgrapponmund01_0006bc33.pscqf_mq302_00045923.pscqf_ms01guardambushquest_000210cd.pscqf_ms02_00040a5e.pscqf_ms11_0001f7a3.pscqf_ms11kicker_000bac24.pscqf_ms12b_0002499c.pscreanimateashpile.pscsf_ms11calixtoattacklastvicti_0002b09b.pscsf_ms11openingcrimescene_000206ae.pscsf_tg00distractionsetupscene_00020e0a.psctif__00092a41.psctif__0009cccb.pscweaponrackactivatescript.pscweaponracktriggerscript.psc

As well, the following scripts' PSC source files were never added to Data\Scripts\Source so there is no source code for them, thus they cannot be easily edited:

c05repaircheck.pexda02fixstagescript.pexda07altaraliasscript.pexdefaultoncellattachenable.pexdunda14portaldisablescript.pexqf_patch1_4_updatequest_01000803.pextg09dooroverridefixscript.pex

Their PAS assembly code can be extracted using PapyrusAssembler {scriptname_without_pex_extension} -D. As far as I know, the only way to edit them is a hex editor.

I'm hoping that the updated PSC source code will be included in the next release of the Creation Kit. I did advise the developers prior to release...

Just adding my voice to this -- Gstaff, Beth, please include all updated source files in the next CK update

So many little things that shouldn't be off or broken are broken... T.T

+1 once again. Hoping it was just an oversight, because we really do need these files to be accurate. There will be no end to the support nightmares otherwise.

http://www.gamesas.com/topic/1345049-creation-kit-update/

Since it's indicated to be resolved, this thread can be closed now.