What flash chips and what cartridge did you use. What was the configuration of the mask ROMs on the cart before you started.
Where did you find the flash chips? To my knowledge you can can count on the fingers of one hand (maybe using one finger) the number of flash chips that match the DIP pinout in most Genesis carts and I don't know anywhere in the world you can get them today and I'm pretty plugged in. I'd be interested to know where to get these chips.
I presume you added sockets for the flash chips and the flash chips are the same pinouts as those of the mask ROMs previously on the cart. If so you should plug the mask ROMs into the sockets to test the cart and make sure it's still working OK after you installed the sockets. If it isn't then you have a problem with your socket installation. If you can verify the cart this way and your flash chips are the same pinout you just need to split the ROM onto the flash chips properly, program and install them and you should be good to go. As a next verification step program the same game that was in the mask ROMs into the flash chips and install them. It should work, if it doesn't something is wrong with your splitting, programming, or your flash chips.