Generally speaking, bouncers are safe for any type of flooring. That said, some types of flooring may be more prone to damage than others.
If you have hardwood floors or tiles, for example, you may want to consider a bouncer with softer rubber pads that will cause less wear and tear on your floors. This will also prevent the bouncer from moving around too much, which can be dangerous for your little one. If you have carpeted floors, however, you may want to look for a bouncer with harder rubber pads that will grip the carpet better and prevent it from sliding around too much.