I think the software/report is written incorrectly. Normally when top heavy minimums come into play, you can treat those receiving top heavy minimums only as not benefitting and if you pass coverage then you don't have to run the 401(a)(4) nondiscrim test. In your case they are benefitting even without the top heavy minimum. Since the NHCEs (I am assuming this is the case) are the only ones receiving an additional contribution as a result of the top heavy minimum, you should pass 401(a)(4) easily. Now if you have some HCEs receiving the TH minimum my answer would change.