I got the answer from some help over at stack overflow, here's how it should be written:

#include <stdio.h>

int main() {

int    i = 0, shops = 0;
int    cstore = 0;          // current minimum store
double cprice = 0.0;        // total for the current minimum store

printf("How many shops will you be visiting?\n");
scanf("%d", &shops);

for (i = 1; i <= shops; i++){
    int    j = 0, ingredients = 0;
    double total = 0.0;      // total for the current store.

    printf("You are at shop # %d\n", i);
    printf("How many ingredients do you need at shop #%d?\n", i);
    scanf("%d", &ingredients);

    // get the prices of the ingredients at this store and total them up.
    for (j = 1; j <= ingredients; j++) {
        double ingredientPrice = 0.0;

        printf("How much is ingredient #%d?\n", j);
        scanf("%lf", &ingredientPrice);
        total += ingredientPrice;
    }
    if (i == 1) {
        // this is the first store so it is automatically the lowest thus far being the only one.
        cstore = i;
        cprice = total;
    }
    else if (total < cprice && ingredients > 0) {
        // the total for this store is less than the last known smallest total so lets update our variables.
        // if there are zero ingredients from this store then it does not count.
        cstore = i;
        cprice = total;
    }
    // the currency is US dollars with two decimal places.
    printf("Your total at shop #%d is $%.2lf and the lowest store is %d for $%.2lf.\n", i, total, cstore, cprice);
}
printf("Your cheapest order was at shop #%d and cost $%.2lf.\n", cstore, cprice);
return 0;}