Start by estimating the accuracy of your temperature sensor and controller. You're going to need to do some comparisons with reliable thermometers for this step. I'm guessing you don't have any laboratory grade thermometers at home that have recently been professionally calibrated. (Who does, really?)
Start by finding two or three digital cooking thermometers (preferably different models) that seem trustworthy. Then calibrate your PID controller by measuring the temperature of a mixture of equal parts crushed ice and water. It should be 0 °C. While you're at it, use the ice slush to check the accuracy of the cooking thermometers you found. Recalibrate or replace them as needed. Finally, heat some water to around 60 °C (or whatever temperature your think you'll be using most often for cooking). Then measure the temperature with your PID controller and the cooking thermometers. That should give you a pretty good idea of how accurate your PID controller will be during cooking. (If you find that your PID controller is accurate at ice temperatures, but quite a bit off at higher temperatures, you likely need a new temperature sensor.)
Sous vide accuracy is frequently in the neighborhood of +/- 0.1 °C, but +/- 0.5 °C is often good enough. I'm not sure what "low accuracy" means, but let's say, for example, that you estimate your accuracy to be +/- 2.0 °C. In that case, simply raise the temperature setting by 2 °C to compensate for the margin of error. It might result in a different level of doneness than you want, but the food will probably be safe.
Take a look at Douglas Baldwin's A Practical Guide to Sous Vide Cooking. Not only does it have some excellent recipes for beginners, but it also has some great safety information. If the food is to be consumed by pregnant women, you don't just want it to be cooked. You want it pasteurized. The guide includes tables for looking up the pasteurization time for fish, poultry, and meat (beef, pork, and lamb). If the meat is starting frozen, add about 30 minutes to the cooking time. If a recipe's going to take too long, use the tables to adjust the meat thickness or temperature in order to reduce the cooking time to your preference. Keep in mind that your shouldn't start the timer until the food is in the water bath and the water is up to temperature. So, save time by heating the water first thing when you're ready to cook.
Anything you salt will firm up in texture over a period of time. I suspect that since you cooked these with seasonings and then chilled and left them in the fridge before reheating an eating they firmed up a great deal in the fridge.
If you check out this blind tasting conducted by Dave Arnold at Cooking Issues you'll find some more detailed info about this topic. The gist of it is that for cook-chill-reheat purposes you shouldn't salt the meat before searing. For cook-direct serve meals your just fine doing it that way.
http://www.cookingissues.com/2011/10/12/to-salt-or-not-to-salt-thats-the-searing-question/
Best Answer
I would think that it wouldn't be ideal ... but if you work quickly it shouldn't cause too much problem. (basically, you want to work quickly enough that the meat doesn't cool down significantly).
I'd probably prep the replacement bag before I even took the meat out of the water, and have a towel and scissors ready (pull the bag out, dry the outside, cut it open, dump it into the new bag (with the liquid smoke already in it), seal it, then get it back in the water.
If you're using a vacuum sealer, and not just a zip-top bag, I'd make sure it's warmed up first, too.
Drying the bag might seem like a pendantic step, but it's both to prevent you getting water into the new bag, and to reduce the amount of evaporative cooling.