Hi there J,
This certainly looks like the previous issue showing up again - especially if only 2 of the 16 chapters are showing the issue. But nothing is ever completely random. Please send in an archive to ptxprint (underscore) support (at) sil.org and we'll look to see what we can do.
BTW, please upgrade to the latest PTXprint >2.5 (as 2.4.7 is already >6 months old); and only in 2.4.13 did the "Check for updates" button start working more predictably, so it wouldn't have warned you that you're on an old version.