RSTP topology changes are generated when a non edge port comes up.
If you are using the default trunk native vlan 1 configuration for all your access ports you could be generating a load of TCN's.
Please configure all ports that go to endpoints as access ports. Meraki software enables edge port / portfast automatically on access ports. Edge ports do not generate TCN's when they come up.
If this is not the case then there must be a part of the L2 domain in your network that actually does have unstable STP topology. Make sure you really check out the entire network.