Vehicle routing problem (VRP) is a highly investigated discrete optimization problem. The first paper was published in 1959, and later, many vehicle routing problem variants appeared to simulate real logistical systems. Since vehicle routing problem is an NP-difficult task, the problem can be solved by approximation algorithms. Metaheuristics give a “good” result within an “acceptable” time. When developing a new metaheuristic algorithm, researchers usually use only their intuition and test results to verify the efficiency of the algorithm, comparing it to the efficiency of other algorithms. However, it may also be necessary to analyze the search operators of the algorithms for deeper investigation. The fitness landscape is a tool for that purpose, describing the possible states of the search space, the neighborhood operator, and the fitness function. The goal of fitness landscape analysis is to measure the complexity and efficiency of the applicable operators. The paper aims to investigate the fitness landscape of a complex vehicle routing problem. The efficiency of the following operators is investigated: 2-opt, order crossover, partially matched crossover, cycle crossover. The results show that the most efficient one is the 2-opt operator. Based on the results of fitness landscape analysis, we propose a novel traveling salesman problem genetic algorithm optimization variant where the edges are the elementary units having a fitness value. The optimal route is constructed from the edges having good fitness value. The fitness value of an edge depends on the quality of the container routes. Based on the performed comparison tests, the proposed method significantly dominates many other optimization approaches.