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Hello,
There is not any issue in above approach. You can read the data from multiple sources and can perform transformation like join and then write to the existing relational database table without any issue.
By default Glue dynamic frame use append mode and add the data to an existing table. Make sure that all the columns should be present in the database table before as job would not be able to add new column and can fail with column not found in schema.
I would suggest please verify the schema of your data after join operation with the database table schema.
If you still face any issue, we require your sample data and script. Hence Please feel free to reach out to AWS Premium Support with sample data and script and we will be happy to help.
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