Thank you for your posts and sorry for the confusion.
The merge is designed for just the reasons you listed.
The merge will stay unless historical data is pulled from your provider instead of the NT database.
So after the merge do not right click--> Reload historical data.
What I think is over riding your new charts is that the days back in your format data series extend further then your merged data. When this is the case NinjaTrader looks at its database recognizes it doesn't have enough data and pulls the data from your provider, and then of course this data from the provider over rides your merge (expected behavior).
What you need to do to make this "stick" is merge a large enough range of data that when NinjaTrader looks at the database to build your chart all the data is there and there is no need for ninjaTrader to pull historical data from your provider.
If you are merging the maximum amount of data you will simply need to reduce the days back requested in your chart. For existing charts you can right click and select Format data series to adjust this setting.
Please let me know if this clears it up and enjoy your day!

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