Upload folder with subfolders using S3 and the AWS console

I suggest you to use AWS CLI. As it is very easy using command line and awscli

    aws s3 cp SOURCE_DIR s3://DEST_BUCKET/ --recursive

or you can use sync by

    aws s3 sync SOURCE_DIR s3://DEST_BUCKET/

Remember that you have to install aws cli and configure it by using your Access Key ID and Secrect Access Key ID

     pip install --upgrade --user awscli   
     aws configure

You don't need Enhanced Uploader (which I believe does not exist anymore) or any third-party software (that always has a risk that someone will steal your private data or access keys from the S3 bucket or even from all AWS resources).

Since the new AWS S3 Web Upload manager supports drag'n'drop for files and folders, just login to https://console.aws.amazon.com/s3/home and start the uploading process as usual, then just drag the folder from your desktop directly to the S3 page.