On Twitter, Mr Kejriwal sought to know from Mr Baijal who had benefitted when the centre removed Atishi Marlena, advisor to Deputy Chief Minister Manish Sisodia, from the post in April.
Ms Marlena was among the nine advisors to Delhi ministers whose appointments were cancelled following a Union Home Ministry directive that said these posts were "not sanctioned".
"So u agree that Del govt doing great work in education? Who benefitted when u removed Atishi Marlena? If u stop creating obstacles, wonders cud be achieved in many sectors. It will make u also proud. Pl support our efforts. Lets be positve. Pl don't create hurdles in everything (sic)," Mr Kejriwal tweeted.
His tweet came after Mr Baijal said on Twitter: "Heartiest congratulations to all our students of Class-XII & their parents for their outstanding performance. Sincere thanks to their teachers. Would advise to follow your dreams with sincerity, dedication & hardwork (sic)."
The April 17 cancellation of appointments had escalated the tussle between the AAP government and the centre.
After CBSE results for Class 12 were declared on Saturday, Mr Sisodia said the Delhi government-run schools had a pass percentage of 90.64, against last year's 88.27 per cent.
He said 168 government schools have achieved 100 per cent results, against the 112 schools last year.
Mr Sisodia also said that as many as 638 government schools achieved pass percentage of 90 and above, against the 554 last year.
Mr Kejriwal too praised the students and said the results were achieved despite many hurdles.
Get the latest election news, live updates and election schedule for Lok Sabha Elections 2019 on ndtv.com/elections. Like us on Facebook or follow us on Twitter and Instagram for updates from each of the 543 parliamentary seats for the 2019 Indian general elections. Election results will be out on May 23.