The present invention provides a method of forming a contact opening, such as a via hole, in which a sacrificial layer is deposited prior to exposing a conductor formed in a substrate at a bottom side of the opening to prevent damage and contamination to the materials constituting an integrated circuit device from happening. The exposing may or may not form a recess in the conductor. The present invention also provides a method of forming a contact opening having a recess in the conductor wherein a sacrificial layer is not deposited until the conductor is exposed, but deposited before a recess is formed in the conductor so that a major damage and contamination related to the recess formation can be prevented. By forming a trench feature over a contact opening formed by using the present invention, a dual damascene feature can be fabricated. By performing further damascene process steps over the various damascene interconnect features formed by using the present invention, various interconnect systems such as a single damascene planar via, a single damascene embedded via, and various dual damascene interconnect system having either a planar via or an embedded via can be fabricated.