If the company you're applying for cares whether you're on LinkedIn, consider withdrawing your application.
Or, if you were a manager on HR's shitlist as someone they wanted gone, they would use employees updating their profile it as cause for the manager's manager to investigate if the manager should be fired for low staff morale, since the employees were seen as getting ready to quit, and so it must be the managers fault.
The company's position was, you should only use your linked in profile to talk about how good the employer was, and anything else to promote the employee or look for a job was a trigger for "finding a reason to fire".
It was horrible. Glad I'm not there anymore.
This is apparently what happens when your HR org is large and bored.