PhD in a science with a professional MS degree In the future I am hoping to pursue an PhD in computer science, however I am still very early in my career and want to get a master's degree and work a while before I pursue a PhD. I am strongly considering cyber security for my master's.

The only issue I have with this is that cyber security is a professional degree, I should also mention that I have a BS in computer science so I do have some knowledge of the subject.

Would getting a professional master's degree (cyber security), rather than a research oriented degree (computer science) hinder my chances, or make me look less favorably to someone who has a MS in a research heavy field? Would doing a master's thesis as a part of a master's degree improve ones chances of being accepted into a PhD program by demonstrating some research?

Thanks.
The way you word your question "hinder me from one day" makes it sound like you're going to apply later in the future. I have known people who have a BS in Theater and a MFA and was accepted to a PhD program in business after spending years in the business world. So it definitely is possible - just depends on your experience and the candidates that you're competing against. There is no "yes" or "no" to your question unfortunately.