1, due to the characteristics of the rating system, the suspected loss in the tournament will be "compensated" in other matches (if you play enough). If your rating drops during the tournament, each of your following wins will yield in more rating points, and each loss will subtract less, as long as you reach your previous "real" rating.
2, according to the rating system definition, if the difference between 2 players is higher than 720 points, the higher player should be able to beat the lower player 100%. If it is not the case, the rating difference is exaggerated, so it has to be lowered, by bringing the two ratings closer, even if the match is part of a tournament.
3,
> players that have more than 1200 points in the table is
> usually in the tournament. This makes the tournament
> something 2nd category, which is not good"
As far as I'm concerned tournament placings and grand prix placings are more important, as there are less distorting factors there (no doubling, no challenge system).
The rating system is just a way of displaying each player's approximate skill (mainly to enable finding opponents of similar strength), but no doubt, it is distorted.
Tournaments are less distorted, so I would take them as 1st category, and general ratings as 2nd category.
The rating system would be perfect, if only tournament matches counted. But that is not the case currently.
4, you might have lost a couple of points even by winning the tournament, but you have lost 200+ since then, without a tournament, so I do not see it as such a big problem (see also point 1)...