Is there a charge for deleting files from the aws console (files are in intelligent tier)

There is no charge, as per the Requests & data retrievals section of https://aws.amazon.com/s3/pricing/

DELETE and CANCEL requests are free

Although you may incur a charge to get to the pont of identifying which object(s) are to be deleted, e.g. you'll likely use one or more LIST operations (even when using the console this calls an API behind the scenes) and these are chargeable at $0.005 (half-a-cent) per 1000 requests.

As Steve M mentioned, there is no charge or cost to delete the objects from S3 bucket but the process you used to delete the objects may incur the charge. You can also refer to this.