Please note this is an old forum thread. Information in this post may be out-to-date and/or erroneous.
Every phpdocx version includes new features and improvements. Previously unsupported features may have been added to newer releases, or past issues may have been corrected.
ah and I forgot to tell, i use word 2016 but i tried it with 2010 and it is the same problem. If I manage to get the numbering right in the merged file, i can fix the problem while converting with converting it twice, so that is no problem.