Were the colonies in Canada administered differently from the American colonies in some way that decreased their desire for independence?
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The short answer is yes, Canada was culturally distinct from the Thirteen Colonies and had a different relationship with the British central government.
During the Seven Years War, Canada was a French colony full of French-speaking Catholics, who fought in the war against their English-speaking Protestant neighbors who were invading from the south. So right there you can guess that there was not very much brotherly affection between the Canadians and Americans 15 years later when the Americans rebelled and tried to invade Canada again.
Aftter annexing French Canada the British set about pacifying their new colony. Disloyal Acadians were forced into exile and replaced with new, loyal English settlers. The British appeased the remaining French colonists by letting them keep their religion, their language, and just generally leaving them alone. So by 1776 the Canadians were pretty satisfied with their situation and saw no reason to disrupt it on behalf of their rowdy Protestant neighbors. Who are invading them. Again.
Most of the population was French Canadian. Keep in mind that until 1760, Canada was New France. By the American Revolution, only a very small percentage of the population was British, and those Brits were largely merchants who relied heavily on trade with Britain for their profits.
The Americans tried to get the French Canadian population to join them, but failed largely due to the influence of the Catholic Church. Having just regained the free practice of Catholicism, French civil law, and a bunch of land, among other concessions (mostly through the Quebec Act),the Catholic Church felt it a more reasonable route to encourage the population to reject the Americans' calls of "liberty" (it didn't help that the Revolution had a lot of ideals that were quite frankly scary to the Catholic Church). When the Church spoke, people listened, because they were central to the lives and society of people in New France. A small number of French Canadians did support the American cause, but the overwhelming majority did nothing, or even actively supported the British.
Liberal ideas were also just not as present among French Canadians. New France had been an absolutist regime. Books by Enlightenment authors were banned. There were no newspapers in the colony, no printing presses, and most people couldn't read. Until 1760 New France was a largely rural, illiterate society whose economy was based on the fur trade and agriculture. In terms of lifestyle, not that much changed in the 20-odd years immediately after the British took over, at least not from the perspective of your average habitant.
The majority of people who were educated had received that education through the Catholic Church. Thus their education was classical, deeply religious, and highly conservative.
So imagine a bunch of culturally dissimilar, religiously Protestant Americans spouting some rather crazy-sounding ideas come in and a) invade your country while b) trying to convince you to join them... if you're a French Canadian, religious Catholic farmer, is that going to sound like a good deal?