"Different agenda" means that people have different goals, plans, or priorities in a situation, and they may not all be working towards the same objective. Full definition
If you don't do this, you will have people with different agendas pulling you in all sorts of directions. (entrepreneur.com)
It's about a very different agenda of bringing down the school district, an agenda to dramatically change what is public education. (laschoolreport.com)
He writes that the scandal has also been exploited by people who have different agendas for church reform. (firstthings.com)