Bajpai, who was arrested in connection with alleged irregularities in utilisation of National Rural Health Mission funds, was on June 15 remanded in CBI custody by a special court.
After questioning him for two-days, the central probe agency today sent him to the Dasna Jail.
Bajpai, who has been accused of anomalies in tenders for purchases under NRHM, will now be produced before the court on June 25.