Mr Ndichu was on Friday charged with one count of rape, administering a sedative and 10 counts of operating unregistered clinics.
The prosecution opposed his release on bail, which the court will determine on Monday.
The accused, who owns several clinics in Nairobi, is alleged to have sedated and raped a woman in one of his clinics.
He already has a separate case of practising without authority that is pending determination at the Makadara Law Courts.
Mr Ndichu has been in police custody since September 11 after his sensational arrest, sparked by public outrage over a video showing a man sexually abusing a sedated woman in a hospital examination table.
Resident Magistrate Edda Agade last week granted the Director of Public Prosecutions “more time” to build a case against the suspect, which was to include operating unlicensed clinics.
Senior State Counsel Jacinta Nyamosi then told the court that police needed time to determine which charge to prefer against the suspect.
The prosecutor said there were two key witnesses who had not recorded statements and were outside Nairobi.
She said the investigating teams were still awaiting reports from the University of Nairobi and the government’s analytical laboratory in regard to DNA extracted from the suspect and other samples picked from other areas for analysis.
“Owing to the nature of the crimes that the respondent is alleged to have committed and the vulnerability of the victims, it is in the interest of justice that the suspect remain in police custody,” she told the court.
The court heard that investigators had so far obtained records from the Kenya Medical Practitioners and Dentists Board, the Pharmacy and Poisons Board, the Nursing Council of Kenya, the Kenya Medical Laboratory Technicians and Technologists Board and the Radiation Protection Board.
The suspect was arrested on September 10 at the Gitungo Hotel in Limuru, Kiambu County, in the wake of the rape allegation.