The 11 newly charged officers included two active duty admirals and one retired general.
All are pending trial.
The court´s decision came hours after prosecutors released the former chiefs of the navy and air force, and another top general without immediately charging them with being involved.
The court said the three were unlikely to flee Turkey.
The government detained 49 high-ranking officers this week for allegedly plotted to overthrow the government in 2003, a year after the ruling AK party came to power.
Prime Minister Recep Tayyip Erdoğan has dismissed opposition Party calls for early elections.
Erdogan met with Turkey´s military chief, General Ikler Bugsbu on Thursday to defuse tensions over the government´s probe.
Opposition leaders claim the coup probe is tinged by politics.
The government denies that claim.
It says it is trying to put the military, which has ousted four civilian governments since 1960, under civilian rule, just like it is done in Western democracies.
The charges are largely based on wiretap evidence and the discovery of alleged plans for a military coup drafted in 2003.
The alleged coup plotters are accused of planning to blow up mosques, and kill some non-Muslim figures to spark chaos in Turkey and trigger a military takeover.
It is widely believed that General, Hilmi Özkok, wh then head of the military, did not back his subordinates.
Ozkok has not been implicated in the alleged plot