The simple answer is Yes. The marks of all the complementary subjects are included in the final percentage. The scores obtained for each subject in each individual semester are included. Apart from this, the score obtained in each course (Core/Complementary/Open) is also mentioned below the Total Score.
This information is applicable only on the Final Marksheet. As for the Degree Certificate, only the final/overall Grade obtained (of all the courses combined together) will be mentioned.