Depends on what you mean by "design capacity". Sometimes, the design flow already has a margin over annual average. This margin over annual average would account for time taken for annual shutdown, other unexpected trips, surges in flow etc. This is for the process plant.
For utilities, the sum total of design margins for each utility must generally reflect the design margins used for the process plant for utilities directly related to plant process, such a process cooling water, hot oil, steam for process and for drivers, flare etc. For utilities unrelated to the main process, each must be looked at individually.
Operators always welcome a healthy design margin, but these parameters usually invite scrutiny from project managers who have a finger in the CAPEX pie during design phase, and margins are usually kept to a minimum unless there are plans for things like future capacity debottlenecking.