点 means a unit here. Usually
This 点 is the same as the one in 地点 or 景点.
In this case, it is a place that they can confer Master's degrees.
Usually, it is a department of a university, which is also an organization (组织) or a unit (单位).
A 硕士点 is authorized by the government that it can authorize a master's degree to the students.
碩士點係指經授權後能自行授予碩士學位的學科或專業 單位 (一般為 學系 )。