You're raising a secondary IP issue to a concern much larger than it actually is, causing you to misinterpret the situation.
IP is one of the very few areas wherein smaller companies can have any hope of leverage over larger ones.
That small companies are blocked from some other patents is an issue, but a lesser one - and it applies to big and small alike.
"whereas small companies without a large IP portfolio can't do anything without inadvertently violating someone's patent." - is plainly false.
Obviously, companies continue to innovate.
Large companies have much more to protect, and far from 'being safe' - IP laws make them more risk averse if anything because they put a lot more at risk than smaller one's.
Google has outright banned their employees from even downloading MongoDB etc. due to lack of clarity over licensing. Without IP protections, Google wouldn't care one bit what they did.
Large companies play against each other mostly in the domain of competition, without IP laws they would step on every smaller company like little ants, without any concern.