Has this been solved?

Yes

The file conflict is still being detected.

Imperator: Invictus :
common\character_interactions\assassinate.txt
common\cultures\00_latin.txt
common\defines\00_defines_invictus.txt
common\governments\00_default.txt
common\heritage\00_country_specific.txt
common\missions\01_carthaginian_missions_09_iberia_2.txt
common\on_action\00_monthly_country.txt
common\on_action\main_event_pulse_country.txt
culture_decisions\non_integrated_culture_decisions.txt
decisions\conversions.txt
events\dhe\dhe_carthage.txt
events\internal_politics_republic.txt
events\mission_events\1.3 - Punic Wars\me_carthage_iberian_investments.txt
events\rise_of_the_family.txt

Also there's one file conflict being detected with the new mod "Units Expanded (Invictus)". Are they compatible?

Units Expanded (Invictus) :
common\cultures\00_latin.txt

These are the files I modify in the mod, so there's always a conflict with it

Do you know if your mod works with/is compatible with the popular Timeline Extension for Invictus mod and TE : Crisis of the third century mod?

The files don't seem to conflict but based on the description they change similar things so I don't know if they can be used together.

It would be great if you could make a version of this mod that works with Invictus/Timeline Extension Invictus/TE: Crisis of the Third Century mods. It seems like maybe you would just have to remove a couple things from your mod to make them compatible?