Unfortunately, no.
There are additional problems with using v5/6, including but not limited to no existing record of a successful field test past chapter 3, and definite records of mods failing to work properly. The chapter incrementation is just one symptom of a problem with the code to convert resources and variables from BG used by Tutu v5/6.
Take a look
here, on the Tutu State of The Modding Union list for more information on Tutu/Easytutu installations when you reinstall.
I suggest a completely clean install from the start, and discard your savegames. v5/6 should not be floating around without huge warning lables all over them saying 'will not be completable with any existing mods at all' and 'this version will not progress past Mulahey's cave', or perhaps 'There Be Dragons Here - Do Not Enter' . The one thing we *do* know is that any mods for Tutu expect a certain chapter numbering internally which those versions did not follow, so any mods installed will not work as advertised (at the minimum), but there is also no research as to what else in the conversion did not work out as expected. And since Macready came along and made EasyTutu, which repaired the minor problems with Tutu v4 without rendering it mod-unfriendly, there has been no public attempt to work with Japheth's source code, though I think he made it publically available when he retired from i.e. modding. That makes sense, because we have EasyTutu and BGT, so there is no big pressure to replicate those projects.
Short story - no one really knows what works and what doesn't in that version. Safest for your time, sanity, and game enjoyment to press the big red 'eject' button and start over. While the distribution is weidu, it is probably safest after a problem install or untested/unfinished version like those to simply blow it all away and make sure you have a clean backup before you start.
I highly recommend starting over with EasyTutu. it is stable, bugfixed, complete, mod-compatible, and it creates its own install separate from BG and BGII - SoA, so if anything odd happens you still have a complete, untouched BG and BGII - SoA. You an even run out several different EasyTutu installs, and have different mods on each. Most of all, it has been field-tested within an inch of its life. If you decide you must use non-weidu BG1-only mods, or a non-english-language distribution of BG/TotSC as the base, then please use Tutu v4 and TutuFix.