General (Daft) Principles
The overarching theme in all of Daft Punk's work is individualism over conformism. Their art deals with the influence of society (by mechanisms such as technology, the government, the market, modern culture in general and peer pressure) to reduce individuals to the lowest common denominator and make them all the same rather than encouraging them to be unique and different individuals.

This theme is expressed throughout Daft Punk's work in many different forms, but it has always been accompanied by a related topic of the relationship between men and machines. "Does the man control the machine or does the machine control the man?" That is the central question that Daft Punk directs their audience to focus on, and they borrow heavily from retro sci-fi because this was a common theme there as well.

At the same time, while it is about individualism, it is NOT about the band members themselves as individuals. They have gone to great lengths to make clear to the world that it is not about them. I can respect that. Their art would seem to indicate that they think that the "star system" or cult of celebrity really exploits rather than empowers the individuals that it appears to glorify.

Spoiler Alert!
Everything from here on out contains major spoilers

Human After All
The most philosophically-inclined Daft Punk album is definitely Human After All. It is about how modern culture keeps us chained to a cycle of mindless mass media consumption. (Television Rules the Nation)

In the music video for Prime Time of Your Life, a young girl has a television-induced hallucination that all the people in the world are skeletons and she is the only flesh and blood person. She sees herself as overweight and ugly, while everyone else (including her own family members) is "normal" even though we see that she is really normal and her idea of "normal" is a distorted frightening image of a human skeleton. She goes into the bathroom and looks at