With peace declared in 1559 he found himself achieving further advancement under the young king Charles IX receiving the Order of Saint-Michel in 1561, and then being elevated to Lieutenant-General of Dauphiné in 1564, replacing the disgraced Laurent de Maugiron.

In the third civil war Gordes and Guillaume de Joyeuse attempted to stop the local Protestant armies joining their compatriots in Languedoc, they were however unsuccessful.

[13] After the disaster at Saint-Quentin in 1557, Gordes was among those under the authority of d'Andelot who had bolstered admiral Coligny's garrison in the town, and as such was subject to a siege from the Imperial army.

[16] In 1564 he was tasked with replacing the recently disgraced Laurent de Maugiron, who had favoured the militant Catholics too strongly in his short lieutenant-generalcy for the preservation of order in the province of Dauphiné.

[19] The long peace was not to last however, and Protestant uprisings would consume Dauphiné, many of the towns that Gordes had overseen the subduing of rose up in revolt again including Valence.

[20] Gordes went on a tour of the province, trying to talk towns down from their uprising, travelling across the Haut-Dauphiné, succeeding in bringing his authority back to many smaller settlements there.

[22] As late as 24 September several days before the Protestant nobility would attempt a coup during the Surprise of Meaux with the aim of seizing the king and killing Lorraine, Catherine was writing to Gordes, urging him to ensure that the peace was maintained in Dauphiné.

[24] Gordes raised an army to fight the rebels, leaving de Chissay at Grenoble to defend one of the few major towns he still held.

The duke of Nemours, who had been raising troops in Piedmont entered the region, and the two joined forces, and after providing a new strong garrison to Vienne marched on Saint-Marcellin.

[26] Moving back into Dauphiné, with the support of the baron des Adrets who had converted to Catholicism, he laid siege to the seigneur de Pipet.

[28] Romans resisted the re-instatement of a garrison as part of the peace, fearful at the prospect of letting Adrets into their walls, Gordes arrived and was able to convince the town to take a royal governor.

[30] Gordes deputised Adrets as colonel general of the Dauphiné infantry, and sent him to join forces with Anjou who commanded the main royal army.

[32] At this time Montbrun, and Lesdigiuères who had been fighting with the main Protestant force, and whose troops had been mauled at the Battle of Moncontour attempted to re-enter Dauphiné.

Gordes was frustrated that the edict had been promulgated so quickly, arguing that it should be delayed until he could ensure that the Protestants of Dauphiné were disarmed and had been removed from the towns they had seized.

The short civil war that followed saw the failed siege of La Rochelle before the election of Anjou persuaded the crown to seek peace.