I wonder if they stuffed up one of your brake wear sensors - sounds very similar to what happened to me some years ago when I decided to strip the brakes on my E90 to inspect, clean and lubricate with copper grease (which clearly the agents had neglected to do), and in the process of me doing this I managed to damage the wires going into the front brake sensor. When I turned the ignition on I was greeted with the same warning lights iirc. Next day I bought a new brake wear sensor and replaced the damaged one, problem solved. However now that I am reading this again, I don't recall seeing the RFT warning light - think it was just the ABS and handbrake. Check this
BMW E90 Series Warning Indicators...
What else did they do, just fit new tyres? Even if the TPMS was not initialised, there would not be any warnings until you drive and brake which is when the system will detect any change in pressure - this also happened to me many years ago. New rear tyres fitted and forgot to initialise - they didn't inflate the tyres to the same original tyre pressures, so only the next day when I was caught by a red robot and had to brake a bit harder than normal I got the RFT warning pop up! Checked and adjusted the pressures after the tyres were a bit cooler, then initialised the TPMS.
Hope the PDF in that link above helps.