The document you linked is only an application. the associated US patent is US9513771B2. This patent is not assigned to Microsoft instead it is owned by WIXCOM Ltd. Whether or not you owe royalties has nothing to do with whether you reference a patent in your patent. It only has to do with whether your product actually implements the invention as claimed by an active patent within the jurisdiction of that patent. In this case, you need to read the claims of US9513771B2 carefully to see if you are implementing what is claimed. To infringe on a claim, you need to implement each and every step in at least one claim. Here is claim one:
A system implementable on a computing device for handling color assignment within a complex document, the system comprising:
a user
interface to facilitate user modification of at least one first color
to at least one second color within a previously chosen color scheme
for a component of said document, said color scheme having a
predetermined number X of principal colors and a predetermined number
Y of associated subordinate colors per principal color;
a color
handler to modify said color scheme to produce an updated color scheme
to match a perceived brightness of said at least one second color
throughout at least a portion of said updated color scheme;
a color
processor to process and apply said updated color scheme at least to
said component; and an inheritance processor to implement said
modifications according to at least one pre-defined inheritance
relationship between said component and at least one other component;
wherein said color handler comprises a brightness handler to calculate
said perceived brightness of said second color; and
wherein said
brightness handler comprises a searcher to search through a perceived
brightness graph to find the color parameters required to generate
said perceived brightness.
As you can see there is more to this than just the standard color picker. Color pickers used in Microsoft Windows (and on the Macintosh which is relevant prior art) go back far earlier than the 2012-08-06 priority date of this patent. My guess is if you are using the standard color picker provided in, for example, Visual Studio, you should be OK. You could ask Microsoft about the licensing terms of using the built in user interface components of their development software. As always, I recommend that you consult with a patent attorney with respect to freedom-to-operate opinions.