This could be an issue. FHA generally doesn't want borrower's having more than one FHA loan at a time - although there are some extenuating circumstances where FHA will allow for this.
To be complete, honest and upfront - you would need to discuss this matter with your loan officer. The mortgage loan application you sign at closing will need to be correct and accurate.
There may be some ways to handle this issue, you just need to discuss everything with your loan officer.