His remark came a day after Lt Governor Najeeb Jung stripped senior officer Tarun Seem of his charge as the Director General of Delhi Health Services.
Mr Seem took over as the DGHS in October last year and was piloting the AAP government's ambitious 'Mohalla Clinic' project.
"This is quite sad. All efficient, honest officers are being marked and removed systematically. Dirty politics (sic)," Mr Kejriwal tweeted.
Sources said Mr Seem was relieved of his "temporary" charge after he had allegedly delayed printing of information and educational material for awareness about malaria, dengue and chikungunya.
As per an order issued by Delhi Health Department after the Lt Governor's nod, Beena Khurana, CMO (SAG), will look after the charge of DGHS till a regular incumbent is posted.
Mr Seem, a 1992-batch IRS officer, is said to be close to Health Minister Satyendra Jain who had lauded him for leading the Mohalla Clinic project, a pet scheme of the Mr Kejriwal government which aimed to provide affordable, high quality healthcare to people near their residence.
Mr Kejriwal and his deputy Manish Sisodia had earlier slammed Lt Governor Jung for removing the senior officer as the Delhi Health Secretary.