If there was an amended tax return due to tuition & was mailed in.Ours was to be dir.dep,will it be late?

I have not seen this issue directly addressed by the IRS. My "guess" would be based on the status of your return on April 15th. If the amendment had been processed by that date you will get a paper check based on the data on the amendment. If the original return only had been processed by April 15th your stimulus will be handled based on the original data. If a 3rd party bank was used for the original Direct Deposit you will still get a paper check.