Hi @RaulAG
Thank you for posting.
According to your description, you would like to remove column which is no longer existing in SharePoint list. If any misunderstanding, please kindly let me know.
Actually, the issue is caused due to cache remaining by previous list. Thus, the most effective way is recreate the flow with same configuration. The flow will detect the up to date list scheme and remove the non-existing column as you required.
Hope the content above may help you.
Best regards,
Anna