Well, there's kind of a myth that it wasn't so bad. This isn't just a postwar myth, either, people during the war commented on how peaceful it was in the Protectorate and how good the Czechs had it. Usually, they were comparing life in the Protectorate to life in Poland. To that I say, yeah, life just about anywhere is good when your definition of bad is Nazi-occupied Poland. I don't hear anyone ever talking about how great it was to live in the occupied Netherlands or France, although it was surely better to live there than in Poland too. In my opinion, this myth is so durable because it fits into some stereotypes held about Czechs both by foreigners and Czechs themselves -- you know, that they're collaborators, not resisters. That said, the Czech birth rate famously rose during the Protectorate years, so make of that what you will.

As far as your personal safety, having enough to eat, this sort of thing, I'd say it was probably comparable to being in Germany itself for most of the war. Farmers were required to turn over a certain amount of produce to the government, which caused a fair bit of hardship -- I'm not sure if this was the case in Germany too (I'd suspect that it was). After 1942, many Czechs were sent as forced laborers to German labor camps in the Reich itself -- this is what was called Totaleinsatz/Totální nasazení. My understanding is that forced laborers from the Protectorate were treated about as well as Western Europeans, not as poorly as Polish or Ukrainian laborers -- still, conditions were pretty awful, and thousands of Czech forced laborers died (of disease, mostly). The Allies also bombed cities in the Protectorate during the later part of the war.

Towards the end of the war things started getting much dicier. Partisans started coming over from Slovakia after the Slovak Uprising was crushed, and people especially along the border with Slovakia were in the position of both having to feed and shelter the partisans and turn over produce to the Protectorate authorities. Towards the end of the war, there were a series of massacres as retribution for partisan activity. You may have heard of Ploština, which is the most famous of these massacres, but there were others, in Leskovice, Prlov, Javoříčko, Morávka, etc. I actually just finished writing a paper on this subject, so this has probably colored my perception of how great life in the Protectorate was.

Something that really seems to have stuck in ordinary Czechs' craws are the Germanization policies. Teachers were required to pass exams in German and national socialist ideology and offer German classes to adults; students were required to take German; shops and other public business were required to have signs in German as well as Czech; towns had to be referred to by their German as well as Czech names, with preference given to the German name. I was reading a school chronicle as part of the research I mentioned above, and the teacher was talking about taking the kids on a trip to Luhatschowitsch-Luhačovice and how he had previously taught in Slawitschin-Mladotitz-Slavičín-Mladotice. This was meant, and taken, as a kind of national humiliation, and it was everywhere.

I should also mention the racial ideology thing, although I won't be able to go into it into great depth. The Nazi administrators had a hell of a time figuring out who was really Czech and who was German, and some of them concluded that the Czechs were better racial specimens (because they were mixed with Germans) than the local Germans (because they were mixed with Slavs). There's a good chapter about this in the book Prague in Black by Chad Bryant. I should also probably talk about denunciation, because this was something that could affect the ordinary Protectorate person's life enormously, but I don't believe this was particularly different than it was in Germany.